WMG: Agents of S.H.I.E.L.D.

aka: SHIELD

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    Asgard 

Asgard will continue to be relevant in this series.
Was it really Odin who sent Sif to recapture Lorelei? Or was it Loki in disguise, as seen at the end of Thor: The Dark World?
  • The second explanation would certainly explain why Sif was ordered to bring such a dangerous criminal back alive: Someone like Lorelei would be a great person to have on your side if you were a trickster like Loki.
  • There's really no other possibility than that it was Loki-as-Odin: the episode unquestionably takes place after Thor: The Dark World (Lorelei escaped when the Dark Elves attacked Asgard and freed the prisoners, and the team dealt with the aftermath of the events of the film several months prior).

Pathways
It's interesting that Lorelei took one of Loki's pathways from Asgard to Midgard. Since it happened during the attack of the dark elves, Loki would have had no time to spare during the whole thing to be planning alternate plans. This means that someone else knows about his pathways. Unless, it was Loki-as-Odin who told her about it but this leads to another question: why did he let such a secret go, as Odin?

Wild Mass Guessing over Lorelei and Sif.
Lorelei and Sif will appear in episode 15, so here are some theories:
  • Lorelei is a enemy of Loki Laufeyson.
  • Loki wants to recruit to Lorelei.
    • Sif says in the end of the episode that Odin wanted Lorelei brought back to Asgard alive, but we all know that Loki is currently masquerading as Odin, so maybe he's creating an Asgardian equivalent to S.H.I.E.L.D.
  • Lady Sif is victim of a Uriah Gambit.
  • Lorelei is The Dragon of Amora.

If Loki appears, then his schemes will be less dangerous and menacing.
Loki will be a Harmless Villain, whose "evil" plans will basically amount to Poke the Poodle. Since he's already got the throne of Asgard, he doesn't need to go after petty humans unless it's for the lulz.
  • There is simply no way the show can afford Tom Hiddleston, even as a cameo.

It isn't that impossible to believe that Lorelei is The Enchantress but under a different name. We'll have to wait until much later to find out if this is true, but its doubtful since Amora is by far the more popular of the two, and Lorelei is acting closer to her comic-book self.

Coulson is Fenrir.
Cast out of Asgard by Odin, bound in human form (possibly with his memories wiped), banished for his part in the bringing of Ragnarok, which is the confirmed name for Thor 3. Maybe found by SHIELD and made an agent when they discovered what he was. It would explain why he came back after his death and revival surgery. It would also explain why, when confronting Loki, he hesitated to use the Thorbuster instead of using it right away. It would also explain why he's so loyal to Fury - Fury reminds him of Grandpa. Oh my gosh please no.

Professor Randolph is Balder
Randolph says that he didn't know Thor and that he was just a mason, but maybe movie!Odin was simply more committed to hiding Balder's identity than comic!Odin. It would explain why we haven't seen Balder in Thor movies so far.

Loki will more friendly with Lorelei in this version, that in the comic.
In the comics Loki was abusive with Lorelei. But as this version of Loki is more Affably Evil, then his relationship with Lorelei will be friendlier.

Tobias Ford was trapped on Muspelheim
Of all the Asgardian realms, Muspelheim is easily the most likely one would mistake for the traditional Fire and Brimstone Hell. It is the primordial realm of fire, after all, and is basically Jotunheim's mirror in climate. Lava, soot, fire giants, probably other devil-like races or critters about, who could blame the guy who making such an interpretation?

    Future Characters 

This series will be used to show different heroes and villains in the extended Marvel Universe
Heroes
  • Black Panther
    • Getting his own movie in Phase 3, as it turns out, but still not impossible.
  • Luke Cage
    • He's getting his own series as it turns out, but it's possible.
  • The Scarlet Witch and Quicksilver; to set up their appearance in Avengers 2.
    • They were seen in the stinger for Winter Soldier, so they've already been set up.
    • So far, Wanda survived the Battle of Sokovia, but her brother is dead at the moment. That said, though, the fandom outcry raises the possibility that we'll be seeing Pietro again.
  • Iron Man; His appearances will make up for the lack of Sequel Hook in Iron Man 3.
  • Doc Samson and Red She Hulk; He and Betty Ross will help Shield in order to keep contact with Banner.
  • She-Hulk
    • Maybe as an origin episode.
  • Iron Fist
    • Also getting his own series.
  • Eric O'Grady, but not as Ant-Man
  • Quake
    • Turns out she's been in the show the whole time.
  • Cloak & Dagger
    • These two are probably the most likely of any. Whoever are running project Centipede were clearly targeting down-on-their-luck, desperate people as test subjects. Testing synthetic drugs on runaway teens, along the lines of Cloak and Dagger's origin story, wouldn't be too far a stretch from them.
    • Rumor has it that of several planned MCU series pilots in the works, one is a Cloak and Dagger series for ABC Family. A spin-off from Agents of S.H.I.E.L.D. would be a good launching pad.
  • Howard the Duck
    • Even in comics, it's an official policy of S.H.I.E.L.D. that "the Duck man from Cleveland" is an Un-Person. However, it could be fun as a Running Gag.
    • Going off this, maybe the team will be called in to investigate a dimensional lapse, and find a talking duck having trouble ordering lunch at a restaurant.
    • He is canon now, so it's possible.
  • Jason Strongbow, aka American Eagle; Complete with his Cool Helmet and Badass Biker outfit from Thunderbolts.
  • Blade
  • Daredevil
    • Another hero getting his own series. But a cameo or crossover, again, isn't out of the question.
  • The Punisher
  • Man-Thing
    • Man-Thing is mentioned by Maria Hill in the episode "Nothing Personal".
  • Fans are still holding out for Carol Danvers to get her own movie as Captain Marvel, but an Early-Bird Cameo would be nice. Particularly since there's now two other characters running around with Kree material of some kind in their blood.
    • DC's Shazam movie is in the works, so this might get held up a bit.
    • Captain Marvel (Carol) will be getting her own movie in Phase 3!
  • Coulson found a dead Kree in the Guest House, which implies a UFO crash. And "Providence" name-dropped the Cube prison. What Kree character was the only survivor of a crash on Earth, and did time in the Cube? Noh-Varr.
  • Ulysses Solomon Archer (aka US 1)
  • Stingray
  • Captain Britain, possibly descended from Falsworth.
  • Doctor Strange
    • Captain America: The Winter Soldier has revealed that he does exist in the MCU, though he hasn't appeared yet, and is still a very brilliant (and arrogant) surgeon.
      • He's getting his own movie in Phase 3.
  • Doctor Druid
  • The Incredible Hercules
  • Elektra
  • Maybe sometime we'll hear about Agent James Woo and his team from the 50s - Ken Hale, Bob Grayson, Venus, Namora and M-11.
  • Human Torch (Jim Hammond android)
    • He made a cameo in Captain America: The First Avenger, on display in the Stark Expo. Maybe he's one of those "Gifted" that the SSR approached before they called themselves "S.H.I.E.L.D".
  • The Howling Commandos (either the descendants of the original team or the modern "monster" team version)
    • Confirmed, at least partially: Agent Triplett is the grandson of a Howling Commando.
    • Jim Morita and Dum Dum Dugan appear in a flashback in the season 2 premiere, alongside Peggy Carter.
  • Agent Crimson or someone else to serve as the team's magic expert.
  • Hit-Monkey: Fitz will finally get that trained monkey he wanted.
  • Isaiah Bradley
  • Night Thrasher
  • Merlin
  • Black Knight (Dane Whitman)
  • Shang-Chi
  • Whazzaaaaap, troopers! It's me, Deadpool! Just here to say that since I'm not a mutant and have really evolved beyond the X-Men mythos and become a great franchise in my own right, I would ROCK in this show! How about Wade Wilson, Rogue Agent of S.H.I.E.L.D.? They did it in that cartoon show!
    • Little White Thought Box: Deadpool, it's impossible. You were in that Wolverine movie. Even if it wasn't really you and just some in-name bastard, the lawyers say no.
    • Deadpool: What, so Magneto's kids can be in an Avengers movie just by slapping the von Strucker twins' origin on them, and I can't? Just swap out Wolverine's DNA for some of that alien-from-Tahiti blood (it's shown to be mind-expanding, so it would explain how I got my hands on the script), and we're good!
  • Quasar, since "Professor Vaughn" mentioned in "0-8-4" and "Seeds" could be Gilbert Vaughn, Wendell Vaughn's father.
  • Blazing Skull
  • Speedball
  • Stripperella, who became a S.H.I.E.L.D. agent after FUGG went bankrupt from a lawsuit and S.H.I.E.L.D. had to buy them to save their jobs.
  • Triathalon
  • Wonder Man, although he could also be a villain.
  • Captain Universe
  • Ghost Rider is summoned whenever innocent blood is shed. Both HYDRA and S.H.E.I.L.D. have shed innocent blood. Imagine Grant Ward's reaction to the Pennace Stare!
  • Darcy (Thor movies). Can you imagine just how well Skye and her would hit it off??? If not, try this.
  • Damage Control
  • Ka-Zar
  • Shanna the She-Devil
  • Moon Knight
  • Misty Knight
  • Squirrel Girl
  • Jack Russell
  • Namor, although he could be a villain, too.
  • Toro, Jim Hammond's sidekick with similar powers. He's been revealed to be an Inhuman, so he could be very important...

Villains
  • Ultron; although they might use him for Avengers 2
    • Annnnd Ultron's in Avengers 2. He's dead, but again, he's very, very smart...
  • Baron Von Strucker; he is Nick Fury's Arch-Enemy.
    • He's also going to be in Avengers 2. Then he died. But his actor also signed a multi-film contract.
  • The Leader; according to the one shot Avengers prequel comic, he was placed in Shield Custody.
  • General Ross/ Red Hulk, who is also going to be in Captain America: Civil War.
  • Kang The Conqueror as a season's Big Bad.
  • Oblivion, who will be the show's version of The First.
  • Joss will be dropping hints that Aldrich Killian isn't the Mandarin and the true one is still out there. Or that someone has inherited the title of the Mandarin.
    • An Expy of the comic book Mandarin. This one will be closer to the original Mandarin (an East Asian guy with ten Rings of Power) rather than the film version. However, he won't be called "the Mandarin" and will instead go by one of the other names that the Mandarin has used, such as Tem Borjigin.
    • This has been semi-confirmed. The 'real' Mandarin does exist and is a lot closer to the original from the comics, but is also still calling himself the Mandarin.
  • Fin Fang Foom.
  • Grim Reaper
  • Purple Man. He would be easy on the special effects budget.
    • Appearing in the Jessica Jones Netflix series, but still not impossible.
  • It's been confirmed that Franklin Hall, better known as Graviton, will be a recurring character. However, we don't know if he'll be a villain or if he'll get his powers, which would likely be murder on the SFX budget.
  • Moonstone
  • Marvel's version of Dracula. The Buffy reference would be to good for Joss to resist.
  • Red Skull, back from wherever he got Bifrosted by the Tesseract to. Probably played by a different actor.
  • The Hate Monger. Who knows, maybe Captain America will appear in an episode and punch out Hitler for real.
  • Ghost, possibly as an affiliate of the Rising Tide
  • M.O.D.O.C., the new leader of AIM. (Or, rather, George Tarleton, but he mutates himself into M.O.D.O.C.)
    Tarleton: I am a far more superior leader than Aldritch Killian ever was, because I am not using AIM's resources for revenge on a harmless practical joke!
    Coulson: I don't disagree...
  • Madame Hydra
  • Loki. Come on, the guy (sort of) killed Coulson, he's already been referred to many times if not by name... Plus, he's one of the most popular characters in the Cinematic universe.
    • Tom Hiddleston himself has expressed interest in such an idea.
    • Lady Loki: A Clone of Loki or Lady Sif. As of the end of Dark World he's posing as Odin, and ruling Asgard unbeknownst to anyone. In all likelihood, it was him who sent Lady Sif to capture Lorelei, which means there's a high chance that he knows Coulson's alive.
  • Zzzax. We were expecting him/it for F.Z.Z.T.
  • Arnim Zola in his famous face-on-a-robot's-chest form.
  • The Super-Adaptoid. Because its main ability is Power Copying, a team full of ordinary humans would likely be the best choice to defeat it. The Super-Adaptoid will defeat whatever super tries to beat it only to be brought down by ordinary humans. This would fit nicely with the show's theme that "Not all heroes are super."
  • Klaw
    • Appeared in Age of Ultron, where he had his arm cut off by Ultron. It's possible that he could appear in the show getting his signature artificial replacement before showing up in the Black Panther movie.
  • Batroc
    • He's going to be in The Winter Soldier.
  • Crossbones
    • Also in The Winter Soldier.
  • Black Knight (Nathan Garrett)
  • The High Evolutionary, who is responsible for the powers of Scorch and several other "gifted" individuals.
  • Juggernaut. Unlike the the other live-action version, this one will be closer to the comic book version to avoid violating Fox's right to mutants. It would be great for someone to finally remember that Juggernaut is not a mutant. The only problem is, would the plane survive Juggie making some 'unwanted advances' to it?
  • It's been confirmed that the Iron Man villain Blizzard will make an appearance. "Seeds" is his origin story back when he was just Donny Gills.
  • Bullseye
  • Madame Masque
  • Titanium Man
  • Controller
  • Bi-Beast
  • U-Foes
  • Ultimo
  • Ymir
  • Mangog
  • Ulik
  • Surtur
  • Baron Zemo
    • Confirmed to be appearing in Captain America: Civil War.
  • Iron Cross
  • Taskmaster
  • Killer Shrike
  • Unicorn
  • Doctor Demonicus, a geneticist and would be responsible for other super empowered beings.
  • Machete (either of the Lopez brothers: Ferdinand, Alfonzo or Mariano)
  • Nitro
  • The Winter Soldier himself. Last seen going on a quest to regain his missing memories and quit being a villain. It wouldn't be too surprising if the team runs into him at some point. Plus it would be another fanboy moment for Coulson to see that the Bucky Barnes is still alive. It would also parallel quite well with Triplett's grandfather in the Howling Commandos, who Bucky would have been close with. Third, how awesome would it be to see The Winter Soldier go up against Agent May?
    • In the comics, Bucky is good friends with both Quake and Mockingbird; given their presence in the show, it wouldn't be surprising to see him drop by and establish said friendship.
  • The Pride. One of the few cops they haven't paid off or killed off yet calls in The Team to help with a criminal organization with considerable power but unusually small reach. They may or may not be working for the Gibborim, who would still be aiming to destroy the world. Their children will also do what they do, causing trouble both for The Pride and Coulson's team.
  • Hyperion
  • Korvac
  • The Sentry, due to his Super-Powered Evil Side.

Raina and Skye are either sisters or clones
It explains her shock when she analyzes Skye's DNA and why she alludes to Skye being 'someone similar' to her. They have the same parent, or are genetically engineered metahumans from another metahuman's DNA. Raina also knew about the massacre of the village to get to Skye...because she was still living with her parents or someone in their inner circle, and heard about it. It partially explains her quest to find unique people: because she's also looking for her family, same as Skye. Also, their names. Skye. Raina. Sky and Rain.
  • Close. They are both Inhumans.

Either Fitz or Simmons will become a Ghost Rider
It's clearly being built up that Fitz will have severe brain damage by the time season 2 begins. Either him or Simmons will be unable to handle his condition, and they'll be offered a deal by Mephisto: heal Fitz in return for their soul. Of course the person who makes the deal won't realize the side effects of it. Furthermore, Ghost Rider is a character similar to Deathlok in which the legacy of the character can easily be passed on to Canon Immigrants.

If/when Ghost Rider shows up, they will steal Lola
Imagine the possibilities of the Ghost Rider hellifiying a flying car.

Grant Ward will become the MCU version of Paladin
Paladin in the comics is a highly skilled mercenary who is shown to work with heroes just as often as he works with villains. He's an exceptional liar/actor/espionage specialist and has a history of having his judgement heavily influenced by women he's in love with. Additionally, not only is Ward the only main cast member note  of the show not to appear in the new 616-universe Agents of SHIELD comic (either because he's HYDRA and they didn't feel like rehashing that plot element in the book or because like Skye he's not a Canon Foreigner), but also... nobody in the comics actually knows what Paladin's real name is. He's given it as "Paul Denning" before, but this is suggested to be a fake name. In-show, it would make sense for him to choose the name "Paladin" as a reflection of the "true hero" he really wants to be, but in practice, he's still an aimless merc whose loyalty is up for grabs. Bonus points for possibly using an old ICER as the MCU version of Paladin's "Stun-Gun".

Agent 33 will become Madame Masque
If she can't shake off the HYDRA brainwashing, she'll eventually get a mask for her face to keep people from thinking she's May.
  • In "Love in the Time of Hydra", when Talbot found out she infiltrated his base he called her a "damn mask".
  • Comic Book Movies Don't Use Codenames, but it appears as though she is the MCU's counterpart for this character.

Xiaoyi/Iso will appear in Lai Xi
As one of the only known Chinese Inhuman in the comics, it'd be fitting for her to appear there (assuming it is in China). She could even be related to Skye and Jiaying.

In season 3 or 4, the team will get a C-List Magic Expert on their Team
Scarlet Witch has made her debut, and Doctor Strange will be making his around the team the fourth season would be premiering (if they get that far). With the growing need to deal with magical threats, Coulson's team will need to find an expert to help them out. One possiblity is Shaman, since Alpha Flight likely won't be making an appearance in anyone else's movies.

    Project Centipede 

The friend Edison Po blinded was Gustav Brant.
Going back to Zodiac, the blind Brant became Libra.

Project Centipede did not originate from Earth.
Not the formula, the project itself. The Clairvoyant is an alien who came to Earth after the Chitauri attack, the reason being that the Clairvoyant needed an expendable race that couldn't fight back if Project Centipede was revealed/deployed to the public, namely humanity. Edison Po and Raina are both members of the Clairvoyant's race, but disguised as humans, explaining the duress under pressure. Scientists like Debbie are human, and are therefore expendable. As for the formula, it's derived from 4 known sources of superpower: Super Soldier Serum, gamma radiation, Chitauri technology, and Extremis. The makeup of the SSS was lost when Erksine was killed, and people are still trying to work it out. It's unlikely that the members of Project Centipede could have deciphered it. The Clairvoyant could have unlocked the formula by brain-probing Erksine while he was alive, without his knowledge.

Related to the above: Project Centipede was started by the Kree.
It would not be the first time they tried to give powers to humans in order to turn them into weapons.

Centipede created Deathlok to be the next superpowered assassin because The Winter Soldier
was deemed impure. Dethlok has some similarities to The Winter Soldier. They have both lost limbs and were brainwashed by the organizations to become an assassin. If Centipede is a HYDRA operation, they need a back up man now that the Winter Soldier has gone off the grid, having saved Steve and all that...

    Coulson's Death and Resurrection 

Akela saw something mechanical inside of Coulson.
As implied by her final lines to May ("no, what did they do to him?"), she saw something inside his body with her mechanical eye's alternate vision. Either an artificial heart as mentioned above, or some kind of device attached to his brain that is responsible for altering his memories.

Coulson has a mechanical heart.
Just like Picard when he got stabbed by a Nausicaan as an Ensign, when Coulson got stabbed through the heart by Loki they quickly replaced it with an artificial one.

Coulson made a contract with one of the Incubators
He survived being stabbed because his Soul Gem was unharmed. They just repaired his body and then he was fine. The higher-ups don't want him to know since everyone else who's been informed of the true nature of the Soul Gem has had a freakout. Combining this a bit with the "Coulson is psychic" guess in the "Other" section, the reason that he is so aware of everything on seemingly so little clues is because something about his wish gave him psychic powers or he has just figured out how to use magic to see these things.
  • For extra fun, his wish was to bring Captain America home to New York (meaning the body but accidentally saving his life since he turned out to be alive, or else he just wished to save him outright and his wish was powerful enough to reach back in time).
Camilla notes that Coulson has a 'renewed idealism' and Amadar wonders if someone 'did something' to him because he's nicer and more forgiving than she remembers. It's possible that Coulson was emotionally conditioned while in Tahitil to believe that Hope Springs Eternal as a safeguard against despair. A second safeguard is all the old things on The Bus; he's surrounded by physical reminders of the Good Old Ways and thus how Good Is Old-Fashioned.

The reason why Coulson has no muscle Memory is because his muscles were rebuilt
After around three months, your body is completely decomposed and there is just a skeleton. Or at least your far enough along that a good chunk of your muscles are gone. The series works as about real time. It's been a bit over a year since The Avengers. And Coulson did not comeback immediately, he came back only a few weeks ago. SHIELD contacted someone (Doctor Strange, Mephisto, Enchantress, possibly Brother Voodoo, etc) to bring him back. While they brought him back completely, the various muscles and tendons had to be rebuilt, which would have erased the "muscle memory" as it wore,or the brain was far enough decomposed it rebuilt itself as a bit of a blank slate (see "The Enemy Within" in Captain Mar-Vell). The Tahiti memories are not only fake, they were built to cover up the trauma of him coming back and as an excuse for the physical therapist thing. Or the Therapist could be whomever brought him back. Either way, decomposition is what caused him to lose the muscle memory.

Coulson is a Time Lord
Lola is his Tardis. When Loki stabbed him, he just regenerated back into himself. Somehow.

Coulson really did die, but was brought back Project Lazarus style.
His implants were seen by Akela with her x-ray vision, which is what she mentioned to Melinda. Besides, he seems to have enhanced reflexes, as seen in the pilot when he dodged a flying van door. It remains to be seen if or when he'll show any other enhanced abilities.
  • Close. Project Lazarus =/= Project T.A.H.I.T.I.

Coulson is the current vessel for the entity Eternity
While Eternity's been grooming him as a vessel for a while (which is why he was tangentially involved in each Avenger's life) when he died, Eternity got Coulson's soul and healed the body. "Tahiti" is where the two managed to equalize themselves. The bright light was Eternity itself (and why it felt longer. It was, literally, eternity) and why Coulson isn't exactly the same. It's not just him in the body anymore.

"Coulson" is a Skrull sleeper agent
He has all of Coulson's memories, but doesn't remember that he's a Skrull. When he finds out, it will lead to him Becoming the Mask. The Skrull letters on the chalkboard in "Eye Spy" could have been foreshadowing.

Coulson was brought back using Hydra Tech
The ultimate Captain America fanboy would be horrified by being kept alive by something made by such an evil organisation, especially if its creation involved unwilling human experimentation. SHIELD repressed his memories of what was done to try and save him the guilt of knowing how he was brought back. If it's some sort of device, it could also be what his protege saw in him in "Eye Spy".
  • Considering the events of The Winter Soldier, this might be true. It could be tech based on Hydra experiments at least.

Coulson is a Super Soldier and he was in the Captain America movie.
It isn't enough that Coulson came back. If they had that technology to bring everyone back then there would be no death at all in Shield. You croak, ok, you'll be fine in a week. Not just anyone can be brought back, but Coulson isn't just anyone. Sometime after Captain America got frozen, another scientist wanting to recreate the supersoldier serum and succeeded in the prototype phase with human testing. It didn't work after that because of a specific set of required traits that the original serum also needed. But it worked for a young Private Coulson who had those traits. Private Coulson signed on to join the program to follow in the footsteps of his childhood hero. Listen to him talk to Steve and the reverence he has in his eyes. There's only two ways someone would regard someone else like that: Either they fall in love with the person which isn't likely here, or if their life was saved. Phil Coulson was saved by Steve when Steve got his powers because he was the little boy the Hydra Agent took hostage. He was personally there to witness the man, be saved, and ultimately hero worship in a way no one else could possibly understand because they were never there. Coulson can be brought back to life for the same reason Steve was able to wake up from being turned into a capsicle. Because the serum allows it.

The 7 Surgeries
Dr. Streiten tells Coulson that there were six failed attempts to revive him; right before the brain surgery scene (which merely altered his memories to erase the trauma of the surgeries), there are 6 brief flashes of scientific and medical equipment that are implied to be the previous attempts and appear to be: And the successful one (#7) is as of this writing, unknown.

Captain America knows Coulson is alive even before the events in Winter Soldier
Information on Coulson being alive is restricted to Level 7 clearance and as shown in Winter Soldier Cap is Level 8. He knows, he's just forced not to make contact due to protocols.

Thanos is angry at Coulson for cheating Death.
The tie-in to Avengers 3 or Guardians of the Galaxy will be Thanos sending one of his lieutenants after the team to "correct" Coulson's resurrection Final Destination-style.

    Skye/Daisy Johnson 
Skye is part of the extremely complicated Tangled Family Tree that binds the X-Men and the Avengers
You know, the one with Hank Pym being married to Jan van Dyne and creating Ultron, who created Vision, who married Scarlet Witch, sister of Quicksilver and daughter of Magneto.

Skye thinks Coulson is her father.
Regardless of whether or not he actually is, she considers it a fairly strong possibility. This would explain why she specifically sent her messages to him, when she theoretically could have made the same threat to any SHIELD official, including some with much more clout than Coulson. (Let's face it, Nick Fury himself probably would have stood up and paid attention if he thought there was even a slight chance Skye had confidential SHIELD info to leak. He even explicitly calls her "a risk" during his appearance at the end of Episode 2.) The fact that a bona fide Badass who regularly deals with aliens, gods, and other super-beings thinks of a run-of-the-mill human armed with an old laptop as a risk says something about her. She could have easily gotten to the SHIELD higher ups if she wanted to dig up info on the redacted file. Instead, she inserted herself into Coulson's team. There has to be a reason behind her specifically choosing him and "I think he's my father" is as good a reason as any.

At least one of Skye's parents wants to Kill All Humans.
Skye was stolen from them at birth and put in an orphanage so that she'd grow up as a human. This would prevent Skye's parents from harming humanity because there would always be a chance that they would hurt their own daughter.
  • According to Raina, Skye's parents wiped out the village in China where she was found by SHIELD. It's possible.
  • Sort of. Skye's mother was a leader among the Inhumans and her father sees nothing wrong with activating all the Inhumans in the world at the cost of everyone else's lives.
  • Confirmed by "Scars" and "S.O.S.", in which Jiaying engineers a war with SHIELD, with the intention to mkill everyone who stands in the way of her revolution. Inhumans' easy access to Diviners means they do have that capability.

Skye will assume a surname.
She has no clue what the names of her biological parents are, so she'll take on the name of someone from the family she's found. Most likely candidates are Avery or Coulson.

Part of Skye's metahuman DNA involves the ability to charm people
As mentioned, Skye is sometimes considered a Mary Sue. Perhaps this is deliberate because her origins give her an innate ability to charm people into liking her.

Skye has healing powers
In "The Magical Place", she pulls Coulson out of the vision he's seeing, telling him to "come back" over and over again. When she did this, she subconsciously triggered her own powers (which were the reason someone killed an entire village to get to her when she was an infant and reversed the effect that the machine had on Coulson.

Skye is subconsciously influencing people to protect her.
Whatever her powers are, one of them might be way to force people to protect her. As a kind of Charm Person. In T.A.H.I.T.I the whole team goes above and beyond desperate measures to save her (raid a medical compound and kill the guards? They even break out the heavy rifles instead of their usual stun weaponry) and while this makes sense for some of them, it's suspicious of May to suddenly go apeshit on the guy who shot her when she earlier didn't seem to like her much. It was even more suspect that Garrett and his assistant who don't even know her almost immediately decide to help Coulson upon hearing about Skye's condition, almost magically. And twice later Simmons is stumped, thinks of what Skye would do, and then immediately has the answer. This would also explain why a whole village and a squad of shield agents were willing to die for her as a baby. Skye herself probably doesn't know this but its so strong she can do it even on the brink of death.
  • This theory is more solid after the events of 1.16, where Ward kills the fake Clairvoyant after he threatens Skye. Even the other characters point out that it's uncharacteristic of the usually stoic Ward to lose his cool like that.
  • The reactions of both Garet and his assistant, and especially May seem far too abrupt to be reasonable even under the circumstances. Though the justification given for Garet seems to be that he's lost enough people to the Clairvoyant already, May has no such explanation, and is even aware that her choice to attack Quin - for no reason other than the fact he shot Skye - made no sense. The contrast to her usual manner is far too jarring for Defrosting Ice Queen or Character Development to cover it.

The reason why Skye unpersoned herself for the first time was to destroy all evidence of the name given to her by the orphanage
With a name like Mary Sue Poots, can you blame her?

Skye’s 0-8-4 power is that she is a Black Hole Sue.
No. seriously, it might happen. So far EVERYONE has eventually come around to liking her and anyone who ever didn’t was portrayed as in the wrong until they changed their minds. However, instead of this just being bad writing on their part, this is her 0-8-4 power messing with people's minds. Fuelled by feelings of abandonment and loneliness when she was a child, her power manipulated reality without her knowing it. Feelings of abandonment as an orphan? No! It's okay! She has a tragic unknown backstory which causes the rest of the main cast to become the family she wishes she had. Even Ward and May, who never had any plans on getting too attached to her (especially Ward), become her big brother and mother figures. Add to that that she’s Conveniently an Orphan, Raised by S.H.I.E.L.D who were also killed off, off-screen, before the plot started and you can see that while her 0-8-4 is trying to ‘fix’ her life, it’s not good at it. For instance, it makes her beautiful while homeless and capable of hacking SHIELD with a garden-variety laptop. She starts as mildly unrealistic and escalating from there into god-like because its feeding her escalating desire to be useful to and needed by her new "family". Her 0-8-4 contrives situations where she is the only one that can save the day. What’s scary, and probably going to be the main plot point is that while Skye might not be aware of it, her power might be aware of her. In fact, it might be mildly self-aware to the point that it acknowledges what it’s doing by giving her the ‘real’ name of ‘Mary Sue Poots’ before then allowing her the 'cool' name of Skye. Her 0-8-4 power is the ability to subconsciously manipulate reality to make her the main character with the true companions that she always wanted when she was little and alone. On a lighter note, it could also be TV tropes has been given god like form. Either one is fine.
  • It wouldn't be the first time this has happened in a Joss Whedon show. Remember Jonathan's Reality Warper spell? Picture that as a constantly active superpower.
  • Her supposed "birth" father might have the same ability, but either on a smaller scale, as shown with Reina, and/or on the exact opposite polarity. Worse yet, unlike Skye, he can actively control this power.

When Skye alters the records so that a person with her birth name exists, Skye will become her middle name
It gives her a reason why she answers to it - lots of people in history have answered to their middle names - and it also means that her dad has no grounds to flip out if someone calls her Skye in his hearing, as that will be part of her name.

    Season 1- 2 Hiatus Theories 

The Koenigs aren't siblings.
They're truly a series of LMDs (highly humanesque robots would dovetail nicely with AoU) and there will be a new one at every single top secret SHIELD facility they visit. They even have blood. The reasons they are both Coulson fanboys is because Coulson is Fury's "One Good Eye" and he wants them to be personally loyal to Coulson, after himself. Their welcoming speech was exactly the same. As in, word by word the same. It's programming.
  • The SDCC promo showed yet another Clone-ig. More evidence for this theory?
  • Triplett is freaked out by how all these brothers look and act the same. Apparently, he has shared his own WMGs with Skye and it's beginning to annoy her.

Ward will become the new Big Bad.
The expression on his face when Coulson confronts him could suggest he's plotting his revenge on the heroes. This will also be a great way to subvert the expectation that he will go through a long redemption arc similar to Faith or Spike.
  • The ending on Season 2 makes it very likely.

Fitz could be brought back as an LMD.
The Koenigs seem very suspiciously LMD-like, especially with the SDCC promo. So, why not Fitz? Fitz-as-LMD could end up being a thing; we only have Fury's word for it that he's alive, and I'd be counting my fingers after shaking hands with that one-eyed lying sumbitch. Fitz could have turned out to be brain dead, and Fury quickly swaps him out for an identical LMD, whose dearths in knowledge and memory could be chalked up to aforementioned brain damage. But why would Fury do this? Because his one good eye still needs May's team to watch him for any GH-325 side effects, and fix him if need be. Going by the finale stinger, that might be sooner rather than later.

Stark will be the first Avenger to know that Coulson's alive.
Considering that Maria Hill (who knows) is working for him, she might let it slip. Also, since he's still working on his "Privatize world peace" thing, he's bound to run into Director Coulson eventually.

Stark already knows that Coulson's alive
Really, S.H.I.E.L.D. didn't go to all that great lengths to cover up his resurrection from other people. Stark likely saw a news clip or picture of Coulson, figured it out, and then didn't say anything because it's Coulson's business to tell him.

In relation to the above, the blue alien will be revealed to be none other than Peter Quill's father
At the end of the movie, it's revealed that Star-Lord is part human, which explained how he was able to hold onto an Infinity Stone as long as he did, even without his team's help. His genetics imply he's part of a long-forgotten, near-mystical race. It could be that after his father didn't get his son delivered to him on time, he decided to make a trip to Earth himself and promptly got captured and dissected by S.H.I.E.L.D. While it could tie Coulson and Skye to the fate of the universe itself, it could also be a point of conflict between Team Coulson and the Guardians. Cos of, y'know, Peter's dad getting killed and harvested for his blood.

We'll learn more about May's mother
Including who she works for.
  • Not in Season 2 at least.
Fury told both Coulson and Tony Stark that they were the new Director(s) of S.H.I.E.L.D...
... because he's still the genuine one. He'll be pulling the strings from behind the scenes. It would explain why there's so much confusion as to which one of them will be the new Director come Avengers: Age of Ultron (the Ao S season finale explicitly claims Coulson, but leaked spoilers for Age of Ultron suggest it will be Stark). Additionally, either Tony or Pepper will feature in a cameo role near the beginning of Season 2 due to this increasing confusion, or possibly Maria Hill will be back with some message from them to Coulson.

Coulson and Stark arguing over who is the Director will be a minor plot
According to Maria Hill, Tony is serious about "privatizing world peace" and it's unlikely that she's the only S.H.I.E.L.D. agent that he's hired. He may believe himself to be the "de-facto" Director because of this and his Fiction 500 status giving him greater resources. There will be Right Hand Versus Left Hand episodes such as racing to catch the latest hostile Gifted or recruiting new talent. They will resolve this plot by sharing; Stark will be the "public" Director and Coulson will be the "hidden" Director.

Tripplett's grandfather isn't Gabe Jones, but Jaques Dernier.
Given his very french name and the large black population in France, it's not too much of a stretch. (Plus, making the black guy the grandson of the only black Commando is a little obvious, and we know how much this show loves its twists.)

    The "Real" S.H.I.E.L.D. 

Team Coulson will assimilate "Real" S.H.I.E.L.D
After the conflict is over, they'll take every asset they have like the Iliad carrier and other valuable resources. Their central command will be "dealt with" somehow, with possible exceptions for Bobbi and and Mack.
  • Confirmed. In "Scars", the two organizations merge; Coulson will be the director of both with the "Real" S.H.I.E.L.D's council becoming an advisory board similar to the World Security Council that Fury reported to.

Real SHIELD and Coulson's SHIELD will eventually resolve their differences with civilty
Instead of coming to blows any further, the two factions will talk it out and eventually reach some level of understanding; Gonzales will prove that he's legitimate in his claims about loyalty and fair treatment of the agents while Coulson will prove he's perfectly capable and trustworthy of running SHIELD. The two will reach some kind of peace and either merge or co-exist as separate entities, after taking some pointers from each other on their respective failings. Because there's no reason they can't resolve this like adults and find some way to do it without any further conflict.
  • Confimed!

Bobbi and Mack will defect to Coulson's SHIELD
Pretty self-explanatory, despite claiming that his 'Real' SHIELD is diplomatic, Gonzales seems to dislike or outright ignore the input from others and is displaying a lot of fantastic racism towards Skye and Coulson - Bobbi and Mack, who know them better, are eventually gonna see just how broken this 'Real' SHIELD is, and how built on hypocrisy it is, eventually.
  • More like they resolve their differences peacefully.

Alternatively, Bobbi will defect, but Mack won't.
Having one of them stick with Gonzales permanently will add weight to the situation. Of the two of them Mack seems more likely, since we're already getting signs that Bobbi isn't completely on board with some of 'real' SHIELD's actions, but none for Mack. Also, losing Mack would hurt Fitz, and Fitz must suffer. Always.
  • Close. Mack is very distrustful of Coulson and therefore resigns... right before Retirony nearly gets him, after which he chooses to stay.

May will join the "real" S.H.I.E.L.D. council
Then she'll demand the impeachment of Gonzales for a laundry list of charges. The sheer number of hypocrisies will gain her a number of allies and this could either lead to a successful impeachment or a civil war within "real" S.H.I.E.L.D.
  • Confirmed for the first part, but Jossed for the rest.

    Inhumans 

Scorch is an Inhuman.
The nuclear power plant that melted down near his birthplace was actually a secret lab researching the Terrigen Mists. This is why he was the only one affected.

The city revealed in the alien writing isn't Attilan
...It's Orollan: the Inhuman city that not even the Attilan residents knew about. It's quite a bit different from the culture of Attilan, since it only has a limited supply of Terrigen and therefore the residents only allow those they deem worthy to undergo Terrigenesis - seems pretty close to how Skye's dad described the Diviner.

The Alien was trying to destroy the mystery city
That was why it was so frantic to get there. Something time-sensitive was about to occur that the alien was trying to stop. There are many possiblities: the inhabitants posed a threat to Earth or the alien's own race, or maybe they found something they weren't supposed to, or both. If the theory that the city is Attilan is true, then perhaps it was racing to stop them from discovering Terrigenesis.

Trip isn't dead, and is in fact another Inhuman.
B.J. Britt has been on the set of Age of Ultron, so there's already that going for him. Plus, when he went down the hole into the city, possessed!Mack didn't start hunting him down or trying to stop him from reaching the temple, as he did Coulson. There's several things supporting this theory:
  • In the comics, there's an African-American Inhuman codenamed Hollow whose powers make him intangible. That could be why we see nothing after Trip's cocoon cracks open. It's writer slight-of-hand.
  • As noted above, nothing hinders Trip from being in the inner sanctum with Skye and Raina, even though it's been indicated that no one who's not "chosen" could get that far. They gave Trip and FitzSimmons a reason for being able to get down there with the hazmat suits, but then take away that reason when Trip goes back down there alone. Either that's very poor storytelling, or he was allowed to get in there for a very specific reason, and it'd have to be for a more specific reason than just to show that Anyone Can Die.
  • At the end when the Eyeless Man (Gordon) is on the phone, he says there's "someone" new. Not the singular, even though it was two people, Skye and Raina, who transformed simultaneously. If Eyeless Man(Gordon) has any contact with Skye's father, than Skye and Raina could've been highly anticipated to come down there and become Inhuman. The "someone new" could refer to Trip, the one person no one had anticipated would be down there.
  • Finally, the official "Farewell to BJ" video ends with Clark Gregg declaring his refusal to move on and holding up the #Trip Lives hashtag. The fact that he was allowed to do that in an official video, the very fact that it's him doing it, indicates this is just like #Coulson Lives all over again: a popular supporting character, supposedly Killed Off for Real to generate demands that he come back, so fans will be all the more overjoyed when he does come back, just like it had been planned all along.

Mac will turn out to be an Inhuman, and has a Tomato in the Mirror discovery in his future
Since he was the member of the team most thoroughly repelled by the idea of Coulson being treated with alien blood, naturally, he will turn out to be the one with some alien DNA of his own.

The Eyeless Man isn't gonna be a villain
While yes, he may be initially hostile towards Team Coulson, he'll ultimately be on the level. The others referred to by him are likely other Inhumans he's been in contact with for quite sometime, and they'll for sure seek out Daisy. However, that won't make any of them villains. It could just be for a simple gathering of all Inhumans.
  • More like Well-Intentioned Extremist.

Lai Xi isn't in China
Skye (and possibly other new Inhumans as well) is merely told that Lai Xi is there, and that only Gordon can reach it, because the Elders don't want her to try to escape the place.

The 'Elders' Gordon mentioned answer to the Inhuman royal family, if they're not the family itself
Comic readers will recognize that Black Bolt (arguably the most famous Inhuman) is the king of the Inhuman society in Attilan. Given that it would be impossible to get everyone of Inhuman descent onto said land, it's likely these 'Elders' look after the ones that are still on Earth for the royal family; keeping them in line, mentioning key activities etc.
  • Alternatively, the 'Elders' are the Genetic Council from the comics.

     Season 2- 3 Hiatus Theories 
The pills in the season 2 finale won't be enough
the Terrigen-infused vitamins won't be enough to turn a person totally Inhuman - in fact, they may not be specific to descendants any more. They've been processed and tossed around so much that they only contain a fraction of the original power and potential, and will only activate if the person is exposed to a second factor - say, an irradiated Spider-bite or some gamma radiation...

The kree artifact is the Time Gem. Simmons wasn't killed, she was sent back in time.

Coulson's injury will spark a Running Gag
That you have to lose a body part in the line of duty to be a proper Director. Fury lost an eye, and now Coulson has lost a hand. It's going to make all potential successors to Coulson worry.

Simmons is empowered and becomes the MCU Ms. Marvel
Kree Artifact + Average Human seems a pretty solid recipe for an origin.

At some point in a future episode, Mack and Coulson will have an exchange of dialogue somewhere along these lines.
Mack: (in a scuffle) Hey, could you give me a hand here?
Coulson: Wasn't one enough?!
Because really, the opportunity is too good to pass up.

Simmons is in stasis.
She's one of the main characters; there's no way they would just drop a bridge on her like that.

SHIELD will need an extra set of medical hands at some point, and so they'll call on Cal.
While his memories have been erased, he's still kept his medical skills, as he is now operating as a veterinarian. At some point SHIELD will need this unparalleled medical ability and will call on him, particularly now that Simmons is gone.

Coulson will get a mechanical replacement arm.
Extra points if it has the Destroyer gun built into it. Fury built some secrets into his bad eye, so there is precedent for it. Also, he knows what the Destroyer does now.

Coulson's arm will be restored by Dr. Cho's genetic technology.
If it was capable of repairing Hawkeye's serious wounds and constructing The Vision from scratch, there's nothing stopping it from building Coulson a new hand. Of course, he might once again have some issues with "muscle memory".

It will be revealed that A.I.M. works for HYDRA.
A major subplot will be that A.I.M. is getting fed up with HYDRA's failures and joins Ward/strikes out on their own leading to a four way battle between SHIELD, HYDRA, Ward's group, and AIM with the Ten Rings, Maggia, the Hand, and maybe the Kree thrown in for good measure.

If vampires are introduced, they will be a subspecies of Inhuman
Since science is magic and All Myths Are True. Plus, it would be a perfect springboard into a Blade movie/series. Also, the episode Blade is introduced could feature Koenig and Deadpool (if Marvel gets the rights.) It would be the Blade Trinity reunion no one wanted.

Henry Simmons will be promoted to a regular cast member.
Because it feels long overdue! One can only be a guest star for so long you know; eventually it becomes non-indicative.

Joss Whedon will take a more hands-on approach than he has thus far.
While Joss is one of the show's creators and is still listed as an executive producer, he's had to take a very hands-off approach to the series since its inception due to being preoccupied with Avengers: Age of Ultron. With that out of the way, and with no other apparent projects for him on the horizon, he may return to the staff of the show (he has also in interviews stated his desire to return to television in general).

Joss Whedon will distance himself from the show

Ward will not be the Big Bad of Season 3.
Because Ward being the Big Bad is a ripe target of Jossing. Either Ward will merely use his new subordinates for a personal vendetta against Bobbi and dispose of them all once his task is finished only to be replaced by the real Big Bad, or he'll already be dead for some reason by the time Season 3 begins.

Right now, HYDRA's remnants are scattered and leaderless, all the harder to root out and finish off. If Ward reunifies HYDRA and then leads it to its true and final destruction (probably by S.H.I.E.L.D.), perhaps Ward thinks that this will finally earn him the redemption to which he clearly feels entitled.

Lockjaw will be introduced
However as just a dog, not whatever he is in the comics. Also he'll be played by a bully breed and have superpowers. Skye will adopt him from her father. After all he did say that something about a home needing a pet, and he has adoption days.

How Season 3 will open.
It will basically replay the entirety of the Season 2 Finale stinger with Simmons getting sucked up by the artifact. Then there's going to be an awkward pause that last a full five minutes, after which the thing liquifies again, spits out Simmons, and reforms, after which Simmons quickly shuts its containment unit and locks it down. The whole thing is basically a Crowning Moment of Funny waiting to happen.

The term "Gifted" is related to the X-Men
The X-Men school is called "The Xavier Insitute for Gifted Youngsters". If Marvel ever works out a deal for the TV rights to X-Men like they did with Spiderman then this will be used as a lead in for it. S.H.E.I.L.D was inspired to use the term because Professor X used it first.

The movies are going to be of great importance to the universe next season
  • Ant-Man plotwise might not hold that much effect on the war of spies and terrorist groups, but Scott Lang might make for a great agent for Coulson and Skye's new team. After all, he'd make for a perfect infiltrator. Perhaps bringing him on as a recurring character getting information for them, thanks to his criminal background in stealing things.
  • There's Captain America: Civil War to consider. Considering what happened to SHIELD the last time we had a Captain America film, this film could serve in the same way Winter Soldier did for changing the show drastically.
    • For example, Coulson could finally reveal himself to The Avengers, letting them know he survived, creating a great guest star episode to get one of the big guys to do an episode. (Maybe have the new Avengers team work alongside Coulson's team for an operation?)
    • They could also use the whole season to help continue that "real SHIELD" issue, and show that the tensions aren't over yet. This would serve as a perfect metaphor for what Iron Man and Cap will be doing in this movie.
    • Perhaps they could eventually step out of the shadows to take control after/before the civil war and give the world some stability again outside the Avengers.
    • Ward's HYDRA building could lead to an Enemy Civil War, creating a new metaphor of the 2 heads going at each other, with Ward and Baron Zemo fighting each other for control of the organization.

Ward wants to destroy both HYDRA and S.H.I.E.L.D.
Even when he was in HYDRA in the past, he was never truly loyal to them. And between what they've done to both him and Kara, he has little reason to love them now. But he can't fight S.H.I.E.L.D. all by himself, and HYDRA is in need of a new head. What better way to take out both factions than to pit them against each other?

Simmons will try to kill Ward again in Season 3.
When Simmons tells Fitz that she attempted her plan to kill Ward back in the Arctic, she says that she will blame herself for the next bad thing he will do. That "next thing" was shortly revealed to be kidnapping Bobbi to torture and attempt to murder her as a part of Kara's "closure". If Simmons comes out of the Kree stone with superpowers, there's probably a good chance she'll use them the moment SHIELD happens to have intelligence on Ward's last location, in order to get vengeance for Bobbi, Fitz, and herself.

Simmons will have undergone an Adrenaline Makeover when she exits the stone
It'll contain some kind of terrifying hellscape that she's had to survive all this time, especially if it works under Year Inside, Hour Outside. She'll return all beat up and worn down but also having taken a level in badass.

Ward will undergo the TAHITI process.
It's already been shown that Coulson is willing to pardon Ward if he undergoes the process. Eventually, he'll be captured and given a choice: Stay in a cell for the rest of his life or become someone else.

Related to the above theory: Ward's new personality will be Taskmaster.
In the comics, Tony Masters was a SHIELD agent who gained his powers when taking an experimental memory-affecting serum. It's possible that an accident during the TAHITI process will give Ward new memories as well as Taskmaster's powers.

At the start of Season 3, Fitz and Simmons will be in a relationship.
And Fitz will start suspecting something because it goes too perfectly.

Season 3 will introduce magic into the MCU
With Phase 2 of the MCU winding down and Dr. Strange slated to be a part of Phase 3, Season 3 of Agents of SHIELD will begin introducing components of actual magic and all the things that accompany it into the universe.

Simmons is an Inhuman, but doesn't know it since she never got activated.
At the end of the Season 2 finale, Simmons was swallowed up by the Kree weapon, which was meant specifically to attack Inhumans. Why should it attack Simmons if she's just a normal human? Next Season, she'll take some fish oil supplements and things will get interesting.

Donnie Gill is still alive
As established earlier in the episode, Skye has never taken anyone out, so she was probably using ICERs, not real bullets. Even if she was using real bullets, she probably wouldn't go for a kill shot, and even if she did, he wouldn't die as fast as he started to freeze. The fall wasn't large enough to kill him, and hypothermia—if it affects him—wouldn't kick in that fast. Plus, Skye says that they Never Found the Body. He froze himself to survive and will return in season 3.

Matt Murdock will appear for an episode in Season 3.
While assisting the team with a mission, he'll casually mention his time at St. Agnes orphanage. Hearing this, Skye will remember him.

Ward will try to form an alliance between HYDRA and The Hand
He hasn't got very many members with him right now, so he needs another organization to fill the ranks until HYDRA is back on its feet. He'll offer The Hand protection, resources, and whatever it takes to get them on board, and in return he'll ask them to help HYDRA - and resurrect Kara.

The Monolith is a Symbiote
While the solid form and Kree origin are new, the Monolith's liquid form looks a lot like a Klyntar symbiote, the same species as Venom and Carnage. In the season finale it bonded to Simmons, and while she won't become one of the aforementioned characters, she will be something similar, possibly Scream.

Hunter and Skye will become an Official Couple
As part of his Character Development, Hunter decided he was done with his mutually destructive relationship with Mockingbird and him and Skye had quite a bit of Ship Tease in early Season 2.

Darren Cross' shrink-ray pistol from Ant-Man will appear.
The pistol kills a person and shrinks a body's mass so that it's easy to remove the evidence. Such a weapon would be useful to both SHIELD and HYDRA.

The Secret Warriors will be a Multinational Team
Mainly due to Civil War. The movie is expanding the Superhero Registration Act to a global level, but only seem to be representing that via Black Panther. But Skye's team could easily contain heroes from around the world including Faiza Hussain, Eden Fesi, Radiance, and members of Alpha Flight or Big Hero 6.

The Kree Stone and Simmons won't have an immediate payoff
The opening scene of season 3 will be Simmons being regurgitated, standing up, and resuming her duties as if nothing is wrong, and nobody will realize that the rock even took her. But over the course of the next few episodes she'll start behaving oddly, and somebody will see the footage of her capture and realize something is wrong with her.

     Spin-Offs 

The show will occasionally be used for Poorly Disguised Pilots of whatever obscure character Marvel wants to make a movie for next
Doc Strange, Heroes for Hire, Daredevil reboot, hell even a much-better-made Howard the Duck reboot. The potential is limitless.

There will be an Inhumans Spinoff
That will be based on the contemporary Inhuman comic, which focuses on the wide scale emergence of Nuhumans. Characters from Agents of Shield will make guest appearances and SHIELD or possibly SWORD will serve as an initial antagonistic presence.

The spinoff will be Avengers Academy
The Theta Protocol plot provides an easy way to build up to that, along with the set pictures from Age of Ultron revealing a pseudo-Avengers Academy already built. Plus ABC/Marvel probably won't be able to resist slapping on the Avengers name onto the spinoff for brand recognition and marketing.
  • Given way Age of Ultron ends with the New Avengers Facility being established, this one is entirely plausible.

The proposed spinoff will be Thunderbolts.
A crew of former villains and supervillains who team up to seek redemption by means of Pay Evil unto Evil. Characters could include Grant Ward, Agent 33, a brainwashed Bakshi, Mike Peterson, and Skye's father. May involve heavy doses of Heroic Comedic Sociopathy.
  • Bakshi's death in "The Dirty Half Dozen" rules him out, but Wendell Levi, Karla Faye Gideon, Francis Noche, and Angar the Screamer would all be possibilities.

There will be a crossover and/or Poorly Disguised Pilot for the Netflix series.
It's been announced that Netflix will be airing a number of MCU-based shows, starring Daredevil, Jessica Jones, Iron Fist, Luke Cage and the Defenders. (The latter of which is a team-up miniseries of those characters). Agents of SHIELD could have a few episodes focusing on those characters.

The shelved spin-off with Bobbi and Lance was Marvel's backup plan.
Just in case the show didn't end up being renewed for a third season, the spin-off would have served as something of a retool so that a TV series based around SHIELD would continue to air.

    Other 

Melinda was pregnant during the events of Bahrain
She was unknowingly in the early stages of pregnancy during the mission and the ensuring stress and trauma it caused made her miscarry.

SHEILD is working with the NSA
They have extensive surveillance. Maybe the Patriot Act was really about finding super powered people and terrorism was just a cover.

The Rising Tide is the supernatural branch of Wiki Leaks
Both are trying to expose government secrets. Alternatively, The Rising Tide is a metaphor for Wiki Leaks.

This show will never be canceled
Because if it were canceled, the ABC execs would be flayed alive by the combined angry mobs of Marvel fans and Joss Whedon cultists.
  • Marvel has announced that they've already worked out an outline for where they want the show to go all the to the end of Season three, despite not yet getting a green light for filming season two yet. Given the people making the show and the network that airs it are all under the same company Disney may be more forgiving so the series may be able to float on low ratings for longer than most shows that are run.
  • Near the end of season 2 it looks very likely that they will receive a third season, as well as a spin-off.

Dean Ambrose, Seth Rollins and Roman Reigns will guest star at some point.
Let this happen.

The other agents will eventually find out about Coulson's love of Captain America

Coulson and May were in a relationship while in the academy

The series will end with Coulson making a Heroic Sacrifice and being Killed Off For Reall

Either Fitz or Simmons will be killed off eventually.
Fitz and Simmons are the cutest two characters, and a pair of people so close that even in-show they are called by one name. Wise-cracking duos usually become popular in fandoms. This is a Joss Whedon show. One of them is almost certainly going to die. Joss is probably salivating at the potential fan tears already.
  • Simmons almost died in FZZT.
  • As of "Yes Men" and Simmons being blocked by Coulson on developing the GH serum, Fitz will probably die, and it will be in a way that could have been prevented had Simmons been allowed to work properly, driving a rift between her and Coulson who she'll blame for his death.
  • Fitz is in critical condition as of the Season 1 finale, and likely has brain damage.
  • Fitz's brain damage is confirmed and he's hallucinating Simmons, because she left. Watching him struggle with basic living is indeed worthy of fan tears.

Coulson got Audrey pregnant shortly before his "death"
Audrey didn't find out until after the events of "A Light in the Darkness" and keeps the child as Someone to Remember Him By. Coulson doesn't find out until much later, due to him trying to avoid finding out about her life or because S.H.I.E.L.D. deliberately hiding this knowledge from him.

Ron Glass's character will pull a Face-Heel Turn, if he isn't already The Mole.
Because every time Joss Whedon brings back a Firefly vet, they're a bad guy. Caleb. Jasmine. Alpha. Allison. Don John.

S.H.I.E.L.D. has access to Dollhouse tech.
While Coulson is still Coulson physically, he probably received Active architecture and got imprinted with his own personality, minus whatever mental modifications S.H.I.E.L.D. made to the imprint. "Tahiti" functions as code for his handler. (Probably Maria Hill.)
"Did I fall asleep?"
"Only for a little while."

The series will end with all of the members of the Bus needing to get their brains wiped to remove all memories of S.H.I.E.L.D.

Grant Ward is the son of a Super Villain.
He's a Badass agent with a Dark and Troubled Past whose antisocial tendencies are said to be "not surprising considering his family history."
  • Given how he responds to the mention of his Grandmother in the Pilot ("D: Gramsy?"), he could come from a legacy of Supervillains or Criminals.
  • As it turns out (per S1E8 "The Well"), Ward's dark and troubled past comes not from a lineage of supervillains, but rather ongoing trauma as a child, when his bullying older brother refused to let Grant save another kid drowning in a well.
  • "Turn, Turn, Turn". He's not the son of a super villain but the student of one.

The bored-looking blonde woman in the Paris safehouse is Yelena Belova
She'll come back as a major player.

If the series is a huge success it will end just prior to, or just after The Avengers 3
Since all of the Marvel Cinematic Universe seems centered around The Avengers (currently), as The Avengers 3 comes out, Agents of SHIELD will come to a close to "wrap up" the first successful cross media franchise. All stories in the final season will therefore be directly related to any and all events in The Avengers 3, and major guest appearances from some if not all of the major players in the third (and possibly last, as part of an epic "extended" trilogy) The Avengers film will be rampant.
  • The paycheck for the movie actors for the TV scenes would come from the movie budget.

Iron Man will appear...but not Tony Stark.
The mask will not go off. It's a way to use the character without having to pay a fortune to the actor for a mere TV episode.
  • Probably War Machine/Iron Patriot could also appear since he is military and probably more likely to work directly with SHIELD. If anyone is to appear to interact with Coulson from the Iron Man franchise directly, it could be Pepper (Gwyneth Paltrow - unlikely as she is big Hollywood A list and not a TV person) via a phone call or maybe even Happy (Jon Favreau - more likely as he has been on TV before and would probably not mind a little appearance in the show). If there is a main episode appearance and not just a cameo it would probably be either Clint or Natasha since they actually are part of SHIELD
    • Gwyneth Paltrow did two episodes of Glee. There are always shows that manage to get lots of A list cameos. (Batman!)
    • Pepper is spoken to via phone call, but her end of the conversation is never heard.

The show will have multiple episodes introducing other Marvel heroes, who may later appear in film
An episode with the team dealing with a vigilante in New York (Daredevil), a duo of heroes using their powers to earn money while helping the helpless (Luke Cage and Iron Fist/Heroes for Hire), a mysterious swamp monster with a connection to the super soldier formula (Man-Thing), a young teenaged gay couple using their powers for good (Hulkling and Wiccan, prior to forming Young Avengers), among others. They'll also see the team working alongside other SHIELD-connected heroes, including Widow and/or Hawkeye, and Mockingbird, Carol Danvers, etc.
  • Mockingbird appears as a regular character in season 2.

Mandroid suits will appear
Probably reverse-engineered from some of the parts lying around after Stark pointlessly blew up all his suits.

Skye got S.H.I.E.L.D access codes from Ward when he was under the influence of the serum.
There's no way that one hacker in a van can crack a top-secret government agency in a few minutes when Tony Stark needed a custom-designed bug (and maybe an AI) to crack their files, and even then he was still detected and stopped.

At some point, Coulson will mention an old mission where he posed as a high school principal.
A Shout-Out to Ultimate Spider-Man. It will most likely include a lawyer-friendly nod to the Web-Head himself. Maybe it'll even be mentioned how he used to have a ponytail.

GDI and SHIELD are alternate-universe versions of each other
One is an international organization using a bird-of-prey as a symbol, with origins in black-ops and with a history involving fighting a terrorist organization with state-level resources. The other is an international organization using a bird-of-prey as a symbol, with origins in black-ops and with a history involving fighting a terrorist organization with state-level resources.

Lola is an AI
This explains Coulson's Insistent Terminology, constantly reminding people that his car has a name. Because she's sentient, and she gets offended when people treat her like an ordinary car.
  • If you buy the theory that Coulson is an LMD or android, that would explain why he and he alone has an affinity for her.

Simmons is an alcoholic
She has been shown drinking beer in both of the first two episodes, and in the second episode, when Skye asked her how many drinks she had so far, she deflected the question and told Skye to loosen up.
  • There's further support in Season 2: when Coulson inspects the contents of her fridge while she's living alone undercover, he comments that she has nothing but beer and hot sauce. She counters that there's also some tea in a cupboard. Coupled with the fact that she admits to being stressed and lonely since leaving the team, it's not too out-there to read this interpretation between the lines.

At least one of the earlier model Deathloks will appear eventually
Garrett is Deathlok Mk. 1. Peterson is Deathlok Mk. 5. No mention has been given as to the identities and whereabouts of Deathlok Mks. 2-4, so it's possible that at least one of them is still out there.

Ward always lies
Related to the above, but with broader strokes. Ward is "Level 6" at the start of the show, implying a high degree of training as well as obvious mastery of field ops. It is said he has "mad skillz yo", but other than a dossier that was made about his activities (probably only the things that are allowed to potentially be leaked around SHIELD or even to other organizations without compromising anything) we know almost nothing about his past. This is seemingly true from a fiction standpoint of all the characters, but specifically, no one in universe seems to know anything about him.

Being a trained operative at such a high level, he has also been trained in methods of suppressing the truth, lying convincingly, bending truth into falsehood, and other forms of mental tactics including biological fortitude. That is to say, he has been dosed by truth serums of varying potency multiple times and even if Coulson injected him with a real serum in the pilot, he could resist it or at the work "around it".

In essence, you can't trust anything he says because he is so good at lying, it can all sound convincing and even be worked in so close to the truth that it blends in. He lies for a living.
  • "Turn, Turn, Turn" adds credibility to this, seeing as Ward is a HYDRA agent.

Everyone is a robot.
The entire team is an experiment, with each agent being a prototype LMD based on a deceased SHIELD agent. The perfect spy agent, the hivemind scientists...and Coulson himself, who died and was "revived" in the form of an LMD. It's a big test run to see how AI agents can function in the field.

Apollo candy bars will make an appearance.
Because they're a handy Bland-Name Product owned by the ABC Network.

Graviton will return as a dangerous vigilante looking to eliminate anything he thinks is "bad tech" at any cost necessary
Seems like a good way to reconcile Hall's obvious good guy personality with him still being an antagonist.
  • He'll go after Team Coulson for trying to stop him from destroying the gravitonium.

Skye has a killswitch, like Akela and the MI6 agent
Maybe a more basic version that means she has to take orders through a phone and hasn't got "backskatter" - it could even just be a killswitch of some sort built into her. This would explain her hacking skills (although they could still be her own, but her having a team of other hackers backing her up could explain a lot), why she's still spying (or whatever it is they want her to do) for the Rising Tide when she seems reluctant to betray The Team (and why she considers them family, but didn't feel that way about TRT) and why she empathised with Akela so quickly. It would also explain why she hesitated when Quinn was trying to talk her over to his side; she was waiting for orders on who to roll with.

Mack, the truck driver from episode 3, is the MCU counterpart of US1, or a relative/supporting character thereof
"Mach" is just his code name (if he's actually a trucker he wouldn't use his usual handle) and he suffered a head injury in his appearance. Even if he isn't Archer himself, he could easily be Papa Wheelie (explaining where he got the technology to build US1 from - it's S.H.I.E.L.D tech he was given as part of a settlement of sorts for being injured on the job).

The Heroes for Hire will appear
When the fact they were making a TV show leaked, the Heroes for Hire were one of the first things fans thought of. The format would work for TV, it would introduce some more female and PoC characters (a major complaint of the MCU) and with Ultimate Spider-Man using two of the main three as main characters they have a modern base.
  • As the end of Season 1, this is looking more likely. Mike Peterson refuses to rejoin Team Coulson but still wants to make up for his evil deeds as Deathlok. He could do that and pay the bills at the same time.

Carol Danvers will appear
She's the lead in a new comic, female, has a military background... she won't appear all the time but she would fit the general idea. Of course, if she does it will only be as a military woman, not as Ms. Marvel.

Hawkeye and Black Widow will appear.
Perhaps only in one or two episodes, but they are technically agents of S.H.I.E.L.D. so this would make sense.
  • As an addendum, Nick Fury will show up in the pilot. Samuel L. Muthafuckin' Jackson shows up in "0-8-4". Whoever called that now has permission to gloat. He has also announced that he will appear in the season finale.
    • A recurring appearance by Maria Hill. In the full-length trailer, we hear a woman who sounds very much like Cobie Smulders interviewing Agent Ward about what S.H.I.E.L.D. means to him. Not sure if it's actually her, but, an interesting thought nonetheless. Hill was in the pilot.
    • Not an appearance, but they were explicitly referenced in "The Hub" as agents so good they didn't need extraction plans.

The Fantastic Four and the X-Men can't appear in the series
So they'll just get referenced instead. There will be loads of banter about how those five teenagers keep disappearing on them or something.
  • Possibly some specific-ish references to them in order to keep the potential alive once license deals run out and Disney/Marvel get their property back for films. Also Spider-Man will be referenced somehow. If they do, it'll be roundabout references. They couldn't even get Sony to let them use Empire State University, Spider-Man swinging by in the far background, or even Tobey Maguire standing in a crowd shot for The Incredible Hulk.
  • The Baxter Building was shown as a Freeze-Frame Bonus in Captain America 2, so it's not entirely impossible for them to get referenced.

Any Marvel characters who cannot get a legal mention will have a lawyer-friendly Shout-Out
Such as "the kid from Queens" or "that weird boarding school up in Westchester" or "those four astronauts that came back with super powers". Maybe, through this, when Disney gets the movie rights, they can toss them in there because of the aforementioned shout-outs...

The team will go up against a runaway experiment from the Weapon X program
They won't be mentioned by name, of course, but Coulson will brief the others on a top-secret program run by the Canadian government that experiments on meta-humans to create their own Super-Soldiers. He'll also mention that the closest thing they got to a success was a mercenary who went completely insane and now thinks he's a comic book character. (The files have pictures of Ryan Reynolds)
  • This is mentioned in episode 16, End of the Beginning. The man suspected of being "The Clairvoyant", Thomas Nash was part of a Canadian weapons program dealing with gifted individuals.

MI13, Pete Wisdom, and/or Union Jack will make an appearance at some point.
Clark Gregg hinted on his Twitter that we'd see British superheroes at some point. MI13 almost seems like a gimme, since it's basically the British version of SHIELD. Meanwhile, Pete and Jack are the two main British heroes who either have no powers or have powers that can be easily ignored or explained by current MCU sources.
  • Captain Britain might be hard to justify, considering his origins are pretty firmly magical and so far the only magic we've seen is Asgardian. Same goes for a number of other British heroes, sadly. And, MI13 seems to what STRIKE evolved into, being that they seem to be the current organization dealing with weird superpowered y still age to adulthood at the same rate as humans (i.e. roughly 20 years), but then remain at that state for thousands more years—in other words, Skye IS only 24, but she will still look that way thousands of years from now. This also would bring up an extra layer of drama, as Skye will have to grasp the notion that she will end up outliving her friends and adoptive family by millennia.
Sif's upcoming appearance on the show may be related to Skye's origins. Perhaps she is the offspring of Thor and Sif? This would also technically mean that it was her uncle who killed Coulson, which the show will of course poke fun at.
  • Alternatively; maybe she's half-Asgardian, which would explain the ageing. There's a possible culprit in Professor Randolph. He's been "spreading his genes" for as much as a thousand years so it's not out of the question that a chunk of Earth's population are his descendents. Skye could be 1/100 Asgardian or something like that.
  • Skye being Asgardian is possibly Jossed as of T.R.A.C.K.S., since she is shot twice, and is mortally wounded, like any normal human would be. An Asgardian would easily shrug off something like that. However, Tess Black is a demigoddess, but doesn't have any powers.
  • At a panel at the Paley Festival, Ming-na Wen (May's actress) proposed her own theory that Skye is the child of May and Thor. After all, "he's dreamy". It should be noted that this is her own WMG, with no confirmation from the studio as a whole (Which may at least partially be inspired by fantasies over her character's love life). So one member of the cast is on record as favoring this theory, but it's not confirmed at the moment.

Coulson is an unintentional sleeper agent for Thanos
Akela's handler could see everything she could, this is similar to Coulson and Thanos. Thanos is watching and listening to everything Phil says, sees, and does. He may not have been involved with his resurrection, but dying via Loki's scepter forged a link between Thanos and Coulson that Thanos is taking advantage of right now.

Thanos is learning the innerworkings of SHIELD, what they do, who they are involved with, and just generally gathering intel so Thanos knows the best way to disable them in the future. Already Thanos knows that Nick Fury owes Coulson a debt, that SHIELD has a list of Gifted, that they are large in scope, that Melinda May and Grant Ward's are the team's heavies and by taking them out he could control the plane. That Coulson has so much internal information that he can search. That Skye can help him get other information that he doesn't have.

Later on in the series, Thanos will play his card... by taking over Coulson and attacking them from the inside. Coulson's got very high clearance, friends with many of the other agents, and guilt for the Avengers, if he showed up anywhere, it wouldn't be suspicious until he started killing them and making it easier for Thanos to invade.

  • Thanos may have had a plan already in place, but as soon as he realized what he had with Coulson, and he knew that SHIELD and the Avengers were the main reason his first attempt was stopped. He can use Coulson as an added bonus instead of a new plan in it's entirety.

The series is meant to have a "false freedom"/"manipulation" theme.
So far we've had Project Centipede (both of the subjects we've seen so far were lured in with a "we'll make you powerful so you can be free to take what you deserve" offer and ended up being used), Reyes betraying Coulson by using their previous relationship in 0-8-4 and the villain of the third episode (who ranted on about freedom while being perfectly happy to keep people prisoner for his own benefitnote  and avoid any accountability himself). Akela was even more explicit (given she outright said she felt more free locked in a cage than she did with the Explosive Leash).

Sooner or later May is going to be incapacitated while the bus is airborne.
She's the best person on the team who knows how to fly (And more importantly land) an airplane. That kind of problem is just begging to happen.
  • It is shown in both "The Only Light In The Darkness" and "Nothing Personal" that Ward can fly the Bus.

At some point, Lola will be destroyed
Most likely while someone other than Coulson (probably Skye) is driving her without permission. She will likely do this out of necessity. Some agents take the black SUV out on a mission, an enemy attacks the Bus, and Skye pursues in Lola.
  • Alternatively, it will be blown up by a super villain. This almost happens in "Nothing Personal" while Coulson and Skye are escaping the hijacked Bus in midair. Ward shoots it several times, and it has a rather rocky trip to the ground, but it ultimately survives the ordeal.

There is more than there seems to the plan during The Hub
It is either Secret Test of Character or part of some deeper plot. Possibly tying into the whole SHIELD going bad in the new Captain America movie,if that is what happens. It would explain why Victoria Hand was used in the episode, considering her ties with HAMMER.
  • The Plan may have been a Secret Test of Character for Skye in particular, especially if the promos for episode 11 are any indication; that is, Victoria Hand once again becomes involved, Skye is seen wearing field agent gear and even borrows Coulson's Catch Phrase at one point!

Ward's flashback
Was Ward really the brother who was threatened to not help the brother struggling to stay above water in the well, or was he the one doing the threatening? The oldest brother looked a lot more like Brett Dalton than the brother who was threatened did, which seems like something the producers would catch, unless it was intentional. Does adult Grant subconsciously style himself after his older brother? Was there some kind of body-switching or identity theft shenanigans? Did something happen to Grant, after which the older brother took his identity and devoted himself to helping others as penance? This is the MCU, after all. Stranger things have happened.
  • Ward implied he's Unpersoned himself before.
  • In "Nothing Personal", Ward tells Skye that no, his older brother didn't beat up the younger brother himself; he made Ward do it for him.

The dimension Tobias Ford have been to really was Hel.
Not the Christian Hell, but the Hel of Norse myth.

Coulson's going to end up losing the rest of his antique collection in the line of duty.
He's already sacrificed his trading cards and his radio watch, the rest is sure to follow.

Tobias Ford was trapped in Mephisto's realm
With all the religious parallels in that episode, it's likely. He did say it looked like hell, after all.

Skye will eventually be issued a revolver.
Since she has trouble remembering the difference between the magazine release and the safety catch, the best choice is to give her a gun that takes out all the guesswork. And since she's a hacker rather than a field agent, she doesn't need the most advanced firearms available.
  • Jossed.

Coulson's cellist girlfriend was a spy getting close to him for information.
He's high level and on friendly terms with Director Fury, so he makes a tempting target.

Coulson's first assignment as a SHIELD agent was at a rodeo.
Making his "This isn't my first rodeo, Mr. Stark" line in Iron Man more literal.

Fury knows something about Skye's powers
In his brief cameo in episode two, he warns Coulson that Skye is "a risk". If he's been the Director of SHIELD long enough to have been involved in making her an Unperson, then he might know something about her powers. He could be talking about a lot more than her simply breaking into the SHIELD system.

Quinn's role in Centipede is to create new superpowered individuals
Every time he's shown up, he's been backing someone trying to make some kind of superweapon, and each time, as a result of SHIELD's trying to stop said superweapon, the creator has ended up with powers derived from his creation. That's what he's really after. Now he just needs to fund a raid on a SHIELD holding facility to break his new supersoldiers out.

We will see the formation of something like the Masters of Evil
Centipede, HYDRA, AIM, ZODIAC, or just Mike Peterson will bust open the Sandbox. In the ensuing confusion, Franklin Hall, Donnie Gill, maybe Lorelei and a few others will break out and form a supervillain team. This will be the focus of an episode, as Team Coulson interacts with some vigilantes while having a manhunt. The twist, we discover at the end of the episode, is that the Hall and Gill were incidental. The breakout was cover for thieves boosting the Chitauri virus helmet. Dun dun dun.

Why May let her anger get to her during beating Quinn
Normally she's quite calm and composed, but the beating she was giving Quinn brought out some of the repressed fury she had from taking the Berserker Staff.

The Guest House facility was an outpost of SWORD.
Makes perfect sense, given the confirmed status of it belonging not to SHIELD, rather an as-of-yet-unnamed associate organization and the housing of an apparent (albeit very dead) alien lifeform. note 

Simmons and Morse become an item
There might have been chemistry between them in 2.5 "A Wolf in the Henhouse." ("Call me Bobbi." "If it hadn’t had been for Bobbi, I would never have made it out... she's amazing!") Proposed 'ship name: MockingJem?

General Talbot has been replaced by an imposter
Since the start of the season he's been determined to end SHIELD once and for all. Then comes the attack on the UN and he suddenly goes to bat for SHIELD with the senator who's out to bury SHIELD? Suspicious.
  • He actually was replaced during "Face My Enemy".

Talbot isn't working for the Air Force right now
He's been seconded to NATO to be a part of their anti-HYDRA unit, not the US government's. By acting on behalf of a multi-national group (Even if most of his people are American), he can operate freely in other countries without triggering an international incident over US troops operating in other countries without seeking the host nation's permission, especially since every country he's been seen operating in so far is a NATO member. This way, America is not launching raids on the soil of allied countries; NATO is just performing an internal security op.

Christian Ward and Grant Ward are both secretly conspiring together.
Christian knew that Grant would be able to break free if transferred to him, and it was in fact Just as Planned. As for who really tortured their younger brother...it's still unknown. Maybe Thomas Ward never even existed? This may end up being confirmed when S.H.I.E.L.D. looks into the records of someone named Thomas Ward, but cannot find anything.

Coulson's cellist girlfriend will be killed (or at least threatened) by HYDRA
They need to get Coulson out in the open, what better way than to endanger his loved one.

Skye isn't the person Ward is really interested in.
Lorelei only said there was another; she didn't say who. It might not be a woman at all, but Fitz, and that Ward is in an armoured closet.) It could also be Coulson. Someone has to acknowledge Clark Gregg is only plain by Hollywood standards in universe.

The correct response to the Spy Speak at the Guest House.
Guard: "How was the drive from Istanbul?"
Visitor: "Don't you mean Constantinople?"

The rest of the Avengers will learn of Coulson's survival very, very shortly
At the end of Captain America: The Winter Soldier, SHIELD's entire database is uploaded into the public domain by Fury and Romanoff to expose HYDRA's rebirth (Something Skye will undoubtedly find quite amusing). While the details of how Coulson survived might not be in those files, any mission reports submitted by Coulson after his death and resurrection will be. Sooner or later one of them is going to go through some of those files and realize that Coulson isn't dead (JARVIS on behalf of Stark is the most likely candidate).

Ward is brainwashed (ala the Manchurian Candidate and/or the Winter Soldier).
Lots of people have noted that everything about his actions and facial expressions throughout the episode were not only out-of-character, but just seemed...off. Granted, part of every good sleeper agent's job is to blend in well in enemy territory, but the Shocking Swerve was so out of nowhere, there might be something else to it.
  • Given every HYDRA member's proclivity to smugly shout HAIL HYDRA at the slightest victory, Ward was oddly silent and blank-eyed whenever the opportunity arose.
  • Additionally, his "family history" alluded to by Coulson might go beyond Ward's older brother being a psychopath; it could be generational involvement in HYDRA. He could have been programmed from a young age (or by Garrett during his training) to ally with them, and is either resisting it or feeling extreme regret and internal conflict now that he's been on the good guys' side.
  • One thing from The Winter Soldier that might be relevant to this avenue of speculation is that HYDRA has Loki's staff.
  • He claims he wasn;t brainwashed, but he also the Lying Liar who Lies a Lot.

Ward was telling the truth about the 'truth serum'
If SHIELD really did have a fast acting and highly reliable truth serum available to it, why hasn't the team used it more often? There are three times using it would have made perfect sense: On Vanchat during "The Magical Place", on Quinn during "TAHITI" and on May during "Turn, Turn, Turn". In none of those cases is using the serum even suggested, and all three take place long enough after the pilot that they could restock. Why would the team not use their best interrogation tool on an important prisoner during a crisis? Because it doesn't actually exist.

Blake was specifically targeted by Deathlok
In Turn, Turn, Turn, Hand mentions that Blake had come to her with suspicions that high level SHIELD agents were in fact double agents involved in some sort of conspiracy. Deathlok was sent to take him out because he was getting too close to the truth.

Skye will kill Ward
If it turns out that he really is Evil All Along, then it will be poetic given who trained her. The trailers REALLY seem to be building to an epic confrontation when the "truth" is finally revealed.
  • "The Only Light..." really seems to be building up to this given Skye's discovery of his true loyalty.

After Skye learns of Ward's involvement with HYDRA, she'll be held at gunpoint only for her to use that disarming technique.
Someone (either former S.O. Ward or his own former S.O., Garrett) will lampshade it.

Victoria Hand is still alive.
Let's consider how Hand died. She gave a loaded gun to Ward and invited him to use it on Garrett, only for Ward to turn it on her and her guards instead. This seems not only Too Dumb to Live, but Out of Character for someone as Properly Paranoid as Hand. So what really happened? Hand (and presumably the guards) was a Life Model Decoy or something similar. The whole thing was a Secret Test of Character for Ward—and since he failed, Hand knows he's a traitor and he's in even more danger than he thinks.

The idea that Ward is Hydra has occurred to Coulson.
Someone on the team tries to shut down Tripplet's addition to the team because he was Garret's student and worked with him for years. Why couldn't the same apply to Ward, after all?

Ward tried to kill May in "Yes Men".
Watch the timing there. If we count the amount of time Lady Sif puts on the collar, even under the most liberal interpretation of assuming the collar only disables her power when it's finished extending, there are another five and a half seconds of that scene where they stare at each other and Sif makes a joke. Then, offscreen, Sif has to pull Lorelei to her feet, put on handcuffs, and march her down a hall. (The hall is the length of the interrogation room.) Then we count the seconds between Ward pulling the trigger on the gun, and Lady Sif walking into sight. It's...six and a half seconds. Unless Lady Sif can wrangle Lorelei upright and down a hall, plus put on cuffs, in one second, (She didn't seem to be moving particularly fast when she strolled in.) Ward had stopped being under Lorelei's control several seconds before he pulled that trigger. Granted, it's possible this is just an editing screwup, but it seems equally possible that this was actually Ward trying to eliminate May when he was handed a completely valid excuse.

Pissing off Coulson
So far, there has only ever been one way to make Coulson truly angry; betraying his trust. Even getting stabbed through the heart by Loki or trying to survive getting killed by Scorch did little more than make him very snarky. Skye selling out the team? First time he's ever raised his voice. So far, Coulson has been betrayed 3 times. Once by Skye, which at this point he's forgiven. Once by May, which hit even harder than Skye's betrayal since he's known her longer than anyone on the team. Once by Garrett, a trusted friend. How will he take Ward's betrayal when that comes out? Prediction: They'll be scraping what's left of Ward off the wall.
  • Confirmed as the show progresses.

Ward is truly working for Loki not Garrett
If Ward convinced Coulson of Undying Loyalty, then it's not out-of-the-question that he's fooling Garrett too. Besides, a warrior like him would right in with cold-blooded asgardians. It all started during one of Loki's secret trips to Midgard. He'd heard stories about how the Tesseract was taken there and by bringing it back himself he could one-up Thor. Back then, Ward was not the Consummate Liar he is in the main narrative and was regularly beaten by Garret to make his lies more convincing under torture. Loki thought it would be fun trying to teach him to lie while learning about this organization and using him to find the Tesseract. They bounded over their horrible relationships to their older brothers and fathers. Thus, Ward feeds him information about certain things. If this were true, it would explain a few things. 1. Ward goes after Lorelei despite knowing about her Compelling Voice because he believes she works for/allies with Loki. It's an excuse to work against Coulson (the one who blasted Loki) without blowing his cover 2. In "Providence" he can be seen handling the Berserker Staff without trouble. Perhaps he's taken a liking to it because he's familiar with Asgardian weaponry. 3. He's never said "Hail Hydra!"

Arcade is part of the Rising Tide
Some versions of him have been a hacker, or even a technopath.

If/when they get rights to talk about X-Men and related franchises, they will hand wave their lack of appearances before then with "it was level (_) information"
So far its been established that level 7 is stuff that the public in-universe has vague knowledge of, but no solid info, and seems to pertain to everything we've seen in the cinematic releases thus far. Level 8 is even more secret than that, but what about levels even more secret then level 8? Maybe the Marvel Cinematic Universe takes place just before mutants are publically ousted, just before the 4 go up in space, and just before OzTech begins its research on spiders. These could be monitored by the highest clearance level in S.H.I.E.L.D (mutants, OzTech), or so low risk at this point that it's minimum concern (Reed Richards, OzTech), until such time as the behind the scenes stuff is haggled out and they can be introduced.

A Mythology Gag for when the team is trying to identify a mystery assassin (who turns out to be Taskmaster) who infiltrated a S.H.I.E.L.D. security team and snapped the neck of some random important guy, they go over names on a list of known mercenaries, including...
  • Abner Jenkins, a hired gun from central Europe with tech that could give Tony Stark a run for his money and a personal grudge against Coulson. (rejected because the assassin went in incognito, while Jenkins takes more of a Why Don't You Just Shoot Him? approach)
  • A hitman known only as "Lester" who has worked for some of the world's greatest crime lords (rejected because the assassin killed the target barehanded, and Lester only kills with projectiles)
  • A Canadian mercenary named Wade Wilson who underwent genetic experiments and is dangerously unstable (rejected because the assassin never spoke, and the file makes it very clear that Wilson doesn't shut up)
  • A mercenary from Symkaria named Silver Sablinova who leads her own pack of assassins (rejected because it was clearly a one-man job; and, well, it was clearly a man)
  • Sergei Kravinoff, a Russian big game hunter who decided The Most Dangerous Game was more of a challenge (rejected because he specializes in hunting his prey down, while the assassin was told where his target would be by the Clairvoyant)
  • Ex-S.H.I.E.L.D. agent Anthony Masters, one of the deadliest hand-to-hand fighters on Earth (deduced to be him, because the assassin clearly knew S.H.I.E.L.D. protocols like only an ex-agent would)

Fitz is the MCU's version of Red Ghost.
Explains his fascination with monkeys.

Agent Ward is the MCU version of Deadpool.
Based on nothing but him turning to the viewer at the end of "Turn turn turn". He will be critically injured and experimented on by HYDRA, making him insane while giving him advanced regeneration. He will befriend an agent named Bob before escaping HYDRA.

Agent Kaminsky, the overeager HYDRA agent, is Bob: Agent of HYDRA
His first name was never revealed in the show, and Bob's last name was never revealed in the comics. Coulson's team will need to take him lout very quickly to get to the rest of the event in the finale, so he could easily get reduced to Butt Monkey status in the first few minutes of the episode. We need Bob.

Agents of S.H.I.E.L.D is not an adaptation of S.H.I.E.L.D.
It's an adaptation of Nextwave Agents Of H.A.T.E., where the Beyond Corporation (a shell corporation fronting their arch nemesis S.I.L.E.N.T.) has taken over H.A.T.E. and the 'wavers are on the run.

Roxxon Energy Corporation is everywhere
Random bits:
  • The Leader, under SHIELD custody, is said to have the "ability to predict probable outcomes of tactical and strategic scenarios is so advanced that it borders on clairvoyance" from the Other Wiki.
  • Deathlok Program is produced by Cybertek, a division of Roxxon Energy Corporation, which has a Brain Trust including the Leader in Ultimate Universe.
  • The head of Roxxon Energy Corporation is Aleksander Lukin, who is speculated to be merged with the character Alexander Pierce in Captain American: Winter Solider.
  • Finally, Brand Coorporation is another subsidiary of Roxxon, which is said to have connection(?) to Abigail Brand, an orphan who becomes an agent of SHIELD and director of SWORD. Skye is an orphan and she wants to fly a spaceship.

Grant Ward only ever had one brother.
The other one is an Invented Individual Ward made up to help him manipulate others. The only person who says that Ward has (or had) two brothers is Ward himself. Ward, as described above, is a lying liar who lies. When other characters access Ward's records, they refer to Ward's brother in the singular and never specify which one they're talking about. Both times Ward mentions having two brothers, he's explicitly trying to get Skye to trust him. Since Ward's claims about the nature of his older brother's actions vary between the two discussions, it would make more sense for the older brother to be the fictional one, but the other way would work, too.
  • There are two brothers in the flashback scenes in "The Well" but Ward is a lying liar who lies. It would be easy for Unreliable Narrator to account for this.
  • When the eldest Ward brother appears, the truth becomes more complicated. Senator Christian Ward confirms that he and Grant have a younger brother named Thomas, though his version of what happened between the three of them differs wildly from Grant's. He says that Grant is always lying: "Beneath every lie is another lie." On the other hand, Grant insists that Christian is worse then he himself, and also a better liar. "Thomas" could still be invention for the two brothers to make each other look like a monster.

Thomas Ward was a powered individual.
He took pleasure in turning his brothers against each by using his powers to make them think the other one was torturing him (or in Grant's case convincing him that Christian was forcing him to). This would also be a shout out to Billy Blim on Angel, who also a) came from a family compared to the Kennedys and b) like to watch as other people affected by his powers hurt people (in his case only women) rather than doing it himself.

Lynda Carter will appear as Contessa Valentina de Fontaine
With Maria Hill and Bobbi Morse being played by two former Wonder Women, the pattern is there.

One of the test subjects for Project: T.A.H.I.T.I. was a cancer patient named Wade Wilson
Because if Quicksilver can exist in two unintersectible Marvel film continuities, why can't the Merc with a mouth? Considering the mind-expanding form of insanity that Garret got when being injected with that drug, it totally makes sense that with the wrong set of variables it could imbue someone with Medium Awareness.

Creel turning into wood was a test by the SFX team
To see if they could animate wood well enough to have Groot show up in a future episode.

Lance Hunter will become Deadpool
He's a mercenary who, at one point, was married to a "demonic hellbeast". He loves talking and snarking. Eventually he will reveal that "Lancer Hunter" is a name he choose for himself (like how Mary Sue Poots became Skye) and that his real name is "Wade Wilson". After that he'll get injected with GH-235, go nuts, and develop Medium Awareness.

HYDRA will try to brainwash Talbot
However, the brainwashing will not hold because the one thing they wish for him to do, take down SHIELD, would constantly erase it. This is because Talbot hates Coulson THAT FREAKIN' MUCH due to SHIELD now being a vigilante group and he's stooped to accepting what are essentially bribes from them to keep his position. It's also because he wishes to finally arrest Coulson through legitimate means to prove to Coulson that all these secret agent shenanigans do not work in protecting the world, rather than having just some stereotypical evil organization mind controlling him into doing so.

Skye's nickname for Coulson will not get updated because of his promotion
Because Coulson, as a Marvel character, would not appreciate being called "DC".
  • Confirmed.

Lance and Morse were freelance mercs for hire working together
Lance said that "I met a girl" in response to Talbot's question about why he chose the merc work. He could be referring to Bobbi. Then Bobbi opted to join S.H.I.E.L.D., a decision that clearly didn't sit too well with Lance. This would explain part of why Hunter's a bit miffed about his "she-devil ex" joining the team.

Coulson purposely gave Grant away as a diversionary tactic.
Think about it: By handing Grant to Christian, Coulson appeases him on the public end and subsequently gets Talbot off S.H.I.E.L.D.'s back. Coulson would also know that Grant would attempt escape, and by doing so, Christian will have his hands full trying to contain Grant. They cannot blame Coulson or S.H.I.E.L.D. for Grant's escape, after all Grant was in their hands when he escaped (and he did warn them). All in all, less headaches for Coulson and for S.H.I.E.L.D.

Skye will join HYDRA
The Doctor her father and Whitehall are now allied together. Whitehall is shown to be very efficient at brainwashing even the most loyal SHIELD agents. As a reward for his allegiance and to keep him on HYDRA's side, Whitehall will brainwash a captured Skye into joining HYDRA and being loyal to The Doctor.
  • Jossed.

If the show makes it to Season 3, the characters from Big Hero 6 will make appearances to draw in more viewers
Just like the characters from Frozen are in a season of Once Upon a Time

Bobbi was part of some special devision of SHIELD, alongside Hawkeye and Black Widow
She's specifically called 'one of their best', appears to be a One-Man Army, has a unique looking tactical outfit that resembles what Hawkeye and Widow (and Cap) wore, has mentioned Clint in a way to suggest she knows him personally (and as she knows May, and May knows Widow, means she probably knew Widow as well), worked with Coulson in the past (and had high enough security clearance to know Coulson was alive), and generally seems to be treated like she's on their level. Likely, she was from the same branch of SHIELD that those two were in (along with Captain America during his time with SHIELD), possibly as part of some highly-decorated unit that Coulson oversaw. Alternatively, all three could have been SHIELD's own candidates for the Avengers Initiative (hey, she's an Avenger in the comics), which was why they worked with Coulson and had their own uniforms; as for why she wasn't present at the battle for New York, she was probably busy with something else that kept her away.

The second time around, Christian allowed Grant to do him in.
Overcome with guilt over what he had done to Thomas, and hating his parents for abusing him, Christian goes inside the cabin and stays inside as Grant burns it down and even prevents his parents from escaping the inferno. So in a way, yes, it was a murder-suicide.

One of the main cast members will die in the season finale, occurring in the fallout of Age of Ultron.
AoU premieres May 1, and the fall TV season ends in mid-May.
  • Something bad happens to Simmons at the very end.

Trip will be brought back as an LMD
The "Project Theta" that Coulson mentioned to the Koenigs was a contingency plan that activated LM Ds of whatever members they lost during the mission. They could have gotten brainwaves or whatever they needed when each agent went through the lie-detector. They'll activate Trip's unit and he'll be a part of the team again. Furthermore it could explain his appearance in Age of Ultron, since a robot would fit right in with everything else that's going on in there.
  • This would fit well with the theory that the Koenigs are LM Ds, especially when they teased such to Trip. The first thing he says when Tripp 2.0 is activated will be "I Knew It."

The Koenigs are aliens
They're able to tell each other apart, can spot seemingly unnoticeably differences between each other, and don't recognize that they look identical. It's because they're aliens that are willingly aiding SHIELD, and have simply taken A Form You Are Comfortable With.

There will be a story arc where SWORD is formed as a replacement for SHIELD
Coulson is going to reiterate his offer to Talbot and this time he will point out that despite a relative lack of resources they took out one of the highest ranking HYDRA officers. He will also convince Talbot that there needs to be an organization like SHIELD because the ordinary governments of the world are grossly unprepared to deal with emerging resources that HYDRA is looking to take advantage of. He will do this by either showing Talbot footage of what the Diviner does or more likely have Skye demonstrate her powers to him first hand. Talbot will be convinced and plead to the United Nations the necessity of an organization like SHIELD and will eventually convince them to create such an organization from the current SHIELD agents. Only this time it won't be a peace keeping agency but a response unit to what would be game changers such as Stark level technology, extraterrestrial species, and super human abilities. Humorously Coulson will hate the name SWORD.

Ward will Take a Third Option and form his own faction
That will do the dark things that SHIELD can't or won't be seen doing. This group will consist of Ward, Agent 33 and Cal, who will help them recruit other Inhumans to their cause. When the two groups meet face to face both Ward and Cal will appeal to Skye who will not be impressed. During a discussion with Coulson Ward will say something like "You are a shield. You defend when others attack. You are a reaction. We're a little more ambitious than that. We're like a hammer that breaks those threats before they can hurt others."
  • Confirmed, sort of. Season 2 ends with him declaring that he resemble HYDRA around himself.

Mike Peterson will team up with Luke Cage: Hero for Hire
Mike will notice some evil deeds going on and step in to stop it like The Atoner. Luke will do likewise and there will be a brief Let's You and Him Fight before they turn against the thugs and kick their asses. Afterward, Luke will explain his Hero For Hire business angle and Mike will want in on it. Their first mission will highlight the Red Oni, Blue Oni nature of this team up in a Good Cop/Bad Cop fashion.
Luke Cage: Where's my money, honey?!
Mike Peterson: I'd pay the man his money. I can't hold him back forever.

Ward will go after Quinn
Given his feelings for Sky it isn't too much of a stretch to think he would go after someone who fatally injured her. The Broken Pedestal feelings he has regarding Garrett, who ordered the action, will be another factor. He will offer Quinn a choice: either turn himself and his Gravitonium into custody or Ward will send Cal after him. Quinn will try to Take a Third Option and fortify wherever he's keeping the Gravitonium, only for Ward to lead a group of Inhumans on a siege, with their powers making it a Curb-Stomp Battle. SHIELD will launch their own attack only to find Quinn gift wrapped like Bakshi was and a rose for Skye from Ward as well as the Gravitonium.

Talbot will have a meeting with Quinn
Where he will request, or more likely, demand that he hands over the Gravitonium. There will be an Actor Allusion where Talbot will tell Quinn that he likes Stark more.

Everyone thinks psychic powers don't exist because someone has a vested interest in everyone thinking that
Is it just a coincidence that a show where psychic powers not existing despite every other power under the sun being accepted is a Running Gag, is now incorporating the Inhumans where the main antagonist is a frequently secretive, Manipulative Bastard with psychic mind control powers?

Bobbi and Mack are working for Tony Stark in covert.
Their spying as it relates to Coulson's Toolbox is simply just so that Tony can keep eyes on whether S.H.I.E.L.D. 2.0 can stay afloat and not suffer the same fate that befell the old S.H.I.E.L.D. After all, he can hardly "privatize world peace" if history repeats.

Bobbi was unknowingly brainwashed as part of the compliance programme.
She's a sleeper agent within S.H.I.E.L.D., with Simmons as her handler. It would explain why Simmons rejoined S.H.I.E.L.D. after her HYDRA cover was blown, even though she repeatedly declared in Season 1 she had no purpose within the organisation any more after the uprising (though it's initially implied she came back for Fitz, that's belied by her actions towards him almost immediately).

Fitz doesn't actually have brain damage
He's been treated with GH325 or Extremis as part of the deal Simmons made with HYDRA and has actually made a full physical recovery. It would explain why he's able to make a miraculous recovery from being catatonic and nearly brain-dead when he first wakes up from his coma to nearly functioning normally again: he's actually got severe PTSD, which would explain psychosomatic symptoms like his hand losing some motor functions (note that, as an engineer, losing the use of his hands was the worst physical injury possible in the long-term, and it makes sense for him to fixate on that possibility above others), in addition to things like his aphasia, paranoia and hallucinations, and why all of them get worse again only when he's stressed or upset. Plus, everything Fitz is afraid of eventually happens because he's The Chew Toy, and one of his biggest fears in Season 1 was Simmons turning out to be HYDRA.

Why is Skye there?
This one is almost mentioned in-universe by May at the end of "Who You Really Are": It sure is odd that, after Coulson got brought back from the dead by GH-325, which put in some sort of compulsion to find the hidden city, he immediately locates Skye (someone who 'belongs' at the city) and she joins the team. May seemed to think this was all fate or something, but it actually makes a lot of sense if we assume that Coulson running across Skye was just random chance, but then he experienced some sort of compulsion to bring her along on his subconscious mission to find the city, because something in him recognized her as being 'worthy' of the city. This explains why Coulson would bring along someone who literally stated she was working to bring down SHIELD, and then keep her around after that was confirmed, which otherwise seems the rather strange security risk of deliberately hiring a Token Chaotic Teammate.

Cal's team of supervillains were set up to be hostile to S.H.I.E.L.D.
Since they were all persecuted and incarcerated while HYDRA agents were active within S.H.I.E.L.D., it's possible that one or more HYDRA agents had them deliberately mistreated so that, if the opportunity arose, they would aim their revenge back at S.H.I.E.L.D.

Daniel Whitehall isn't dead.
His youthfulness was obtained by vivisecting the seemingly ageless Jiyaing and giving himself her organs and tissue. In "Afterlife" Jiyaing is revealed to be "alive" due to her powers. If she survived, then presumably so did Whitehall, who absorbed them. This means Cal might get the bloody vengeance he was dreaming of after all.

Cal was taken to Afterlife to detox
Gordon dropped Cal into a room that has no doors and no windows and then left him there except for meals and brief conversations. What purpose could this serve? Cal mentioned earlier that he created a serum that gives him a boost to his physical abilities but also makes him unhinged. Gordon, with his "you're a science experiment" line, shows that he is aware of this. After a while it will wear off and he will calm down. In the meantime, he can't hurt anyone.

Coulson is building Avengers Academy
Why else would Coulson need 100 bunk beds and a very good psychologist with a history of working with Gifted? As Mack points out, a good chunk of Coulson's career has been about people with powers: The Avengers Initiative, TAHITI, and now he's involved with the Inhuman. The blueprints and student list for it are inside the Toolbox. The vibranium coating is thus both for practical and symbolic use since such a material was originally used by the first avenger. He keeps it a secret from his own subordinates because it's need-to-know information.

Coulson doesn't really know everything about the Bahrain incident
He thinks May was brokenhearted because she failed to save Katya, not because she had to put her down personally.
  • Confirmed in "Scars".

If Coulson is making Avengers Academy, it won't include the original comic book class
Instead it will have the early marvel teen heroes such as Cloak and Dagger and the New Warriors, and possibly Blizzard (if they fish him out of the ocean). This way they can avoid an Age Lift if and when they choose to bring the Young Avengers and the comic book class into the MCU.

Scorch isn't dead
He ascended to a higher plan of existence and now exists as essentially living fire, his pyrokinetic abilities enabling him to control the massive amounts of Extremis energy that he was dosed with.

Major characters from this show will never have roles in non-summer films aside from cameos
Even though the entire MCU is connected, Marvel knows that not everybody is interested in every facet of the universe. Some people only see the movies, while some only watch the TV shows. It's easy to have events happen concurrently in both the movies and the shows, but having one character have something major happen to them in a film while not showing it on the show would just be confusing and frustrating.

The relationship the shows have to the movies have been relatively minor, aside from the big hulabaloo after Captain America 2. Avengers 2 was only affected in 2, minor ways: one plotline in Agents of S.H.I.E.L.D answered a question that the movie never asked (the movie starts in media res with the Avengers attacking a HYDRA fortress, which the S.H.I.E.L.D. team found after a lot of spywork), and answered a minor question with another show plotline (where did Fury get a Helicarrier from? Coulson has been making it in secret, which is the mysterious Theta Protocol). So far, no one has been doing all that much interaction with the big guys, who are mostly out of their league. This may change when the Inhumans movie is released, because Skye is one and her mother is the leader of La Xing.

Fury's Hellicarrier from The Age of Ultron is The Iliad
Which serves as an Agents of S.H.I.E.L.D. tie-in for the Avengers 2. Fury gets Hill back to his team from Stark, Hill and Fury both have access to Coulson through the toolbox, and Coulson is currently being willingly taken to Gonzales, who has The Iliad as his base of operations. So far we only ever saw it on sea in the show, but nothing indicates it isn't airborne. This could not only be an opportunity for Coulson and Gonzales to combine their efforts against HYDRA, but to directly help the Avengers as well.
  • Even better: it turned out to be Coulson's ship, not Gonzales'.

Daredevil and Skye will have their The Oner together
Should Daredevil ever show up in an episode and have him and Skye team up to take down a group of mooks, this should happen.

The Bus was stripped before flying to the Artic
SHIELD is under a resource crunch. If Coulson was going to fly it into a mission knowing that it would be destroyed, he'd take everything he didn't need for that mission off of it first. The contents of FitzSimmon's lab, the bar, and anything else of use on it except the briefing room computer and the systems needed to fly the Bus to its death are currently at the Playground.

Nick Fury will scold Coulson for destroying The Bus again
He will say something like, "Really!? Really, Coulson!? Several months after you become Director of S.H.I.E.L.D. you had to destroy The Bus again?! Don't you realize how limited our resources are now!?" Then Coulson will say something like this in self-defense, "But, Sir, at least I saved the bar!" The scene then immediately cuts to both of them drinking together in the bar. Fury then, while half-drunk, will say something like, "I'm glad you at least removed the bar from The Bus before you destroyed it." Coulson will reply with something like, "Yeah, Sir, because it's a really nice one."

Whitehall's subconsciousness is in Jiaying's mind
With Jiaying repeating Whitehall's line of "Discovery requires experimentation", it's possible that Whitehall has somehow entered into Jiaying's subconsciousness.

Skye will figure out Jiaying's deception
  • If she briefed S.H.I.E.L.D. on Jiaying before the meeting (which them knowing her name suggests she did), then her Healing Factor probably came up. Skye will realize that Gonzales wouldn't waste his time shooting someone that he knew couldn't be killed and figure out what Jiaying did.
  • Confirmed.

Grant Ward will be the primary antagonist of season 3.
The season 2 finale will end on a Cliff Hanger or Sequel Hook that sets it up, such as him stealing the device on Gonzales' ship or being transformed into a supervillain like Taskmaster or Grim Reaper. Given how "Scars" implied that Bobbi is the one who dragged Kara from her safehouse so Baskhi could brainwash her, Grant's Evil Plan will be to punish the one who ordered her to infiltrate HYDRA in the first place; either "Real" S.H.I.E.L.D.'s council or Coulson.

Besides Maria, none of SHIELD's higher ups liked Coulson
He's been called Fury's favorite once too many and none of them liked him for it.

Bobbi will be Brainwashed and Crazy with Faustus Method
Ward and Kara did this to Bakshi before, so why won't they do it to Bobbi as well?

Grant Ward will become the new Red Skull.
He'll resemble the Ultimate Marvel version.

The S.H.I.E.L.D agents who left Garrett to die in his backstory were actually HYDRA agents.
  • This may never get confirmed due to Garret's arc being over, but it makes perfect sense. Ask yourself something: HYDRA was so well-hidden that even Fury, the director of S.H.I.E.L.D and a level ten operative, didn't know about them until the events of Winter Soldier (he sensed that something was fishy, but he didn't know the specifics until Cap told him), so how did an agent much lower in rank than Fury discover HYDRA and join up with them? Answer: He didn't. A HYDRA agent attempted to recruit him sometime before the events of the show. Being a loyal agent, he probably refused, at which point HYDRA decided that he needed to be dealt with, so Pierce (or someone else high up in the chain of command) had him assigned to a suicide mission and made sure that there was no extraction team, hoping that he would die. We know the rest: Garrett lived, but his loyalty to SHIELD was broken, leading to him joining HYDRA.
  • This could also explain why there was no extraction team for Fitz and Ward in "The Hub": someone in HYDRA (possibly even Ward himself) was using the same strategy in the hopes that they could convince Fitz to flip.


Alternative Title(s):

SHIELD