Mare of Steel: The story that started the universe. After returning home from a meteor shower, Rainbow Dash finds a green rock that makes her violently ill when she touches it. Later, she begins a journey to discover just who she is and what her place in Equestria is, becoming the hero Supermare. Complete.
Mare of Steel also has a collection of side stories dealing with smaller adventures and encounters that would otherwise slow the main story down.
In Brightest Day, In Blackest Night When a mysterious ring finds it's way into the Crystal Empire, Shining Armor is introduced to a universe far beyond anything he could have imagined. As he works to master new skills and powers, he stumbles upon a threat that could spell doom for him, his home and family, and thousands of other beings across the galaxy. In Progress.
A Dark Knight Over Trottingham: Blueblood has lived in the shadow of his parents' murder for some time. But when his life is thrown out of balance once again, he will begin a journey that shall make him a legend. A Dark Knight. In Progress.
An as of yet unnamed Flash story has been announced.
Tropes that span multiple stories:
Bigger Bad: Darkseid appears to be this, judging by the Sequel Hook at the end of Mare of Steel and comments by the alicorns in Princess of Themyscira about the War in Heaven.
Foreshadowing: In the first chapter of In Brightest Day, Cadence mentions getting a letter from Twilight talking about a research assignment she's gotten to study some artifacts from the Canterlot archives. Flash-forward to a later published chapter of Princess of Themyscira, which reveals that the artifacts in question are the Helmet of Nabu and Amulet of Anubis, which Twilight ends up donning at that story's climax, becoming Doctor Fate.
Simultaneous Arcs: Comments within the stories show that Mare of Steel Part 2, Princess of Themyscira, and In Brightest Day, In Blackest Night are all happening at the same time.
Rotating Arcs: The author alternates between which story gets updated when.
In the sense that Rainbow Dash has superpowers and General Zod has been impersonating Prince Blueblood for years.
Since Mare of Steel was first published before Season 3 aired: Rainbow's mother Firefly is head coach of the Wonderbolts, and her father Thunderhead does not match the description of the pony seen in Games Ponies Play.
Cloning Blues: In one of the side stories, Rainbow Dash is hit with a spell that not only drains her powers, but creates two duplicates of herself based off her intelligence and strength (colored Blue and Red respectively). She ends up regaining her powers and destroying the clones by the end of the story.
General Ripper: Steel Wing is willing to do anything if it will stop Supermare.
Gilligan Cut: One is used to highlight how pointless Steel Wing's paranoia over Supermare is; his first scene ends with him ranting how she's probably "in her secret lair, plotting (Celestia's) downfall", at which point the scene switches to Rainbow Dash waking up from a nap in one of Applejack's trees.
Harmless Freezing: Rainbow Dash does not really have good control over her freeze-breath when sneezing, and ends up freezing a butterfly when it lands on her nose, and Fluttershy when she brings the butterfly to her. Both are unharmed by the end.
She uses this to defeat Clayface in the side story "The Kryptonian and the Bat", drenching him in water before freezing him solid.
Happily Adopted: From what we can see, Rainbow was very happy with Firefly and Thunderhead. She still keeps good connections with Firefly even after she learns they lied to her about being an alien.
Heel-Face Turn: Happens off-screen for Trixie, being as Act II takes place after the episode "Magic Duel".
I Have Your Wife: Brainiac kidnaps Scootaloo to use as leverage against Supermare.
I Just Want to Be Normal: Rainbow Dash freaks out and has this reaction when she learns she's really a Kryptonian. She grows out of it eventually.
Insane Troll Logic: Rainbow's rationale for why the Kryptonite that poisoned her is evil: Various villains they encountered used green magic. The Kryptonite glows green. Therefore, the Kryptonite is evil. Twilight lampshades this.
It's All About Me: Maxima more than demonstrates this during her guest appearance in one side story — she doesn't care that her hoarding of food leaves her subjects starving, and doesn't care if her chosen mate loves her back.
It's All My Fault: A side story set after the conclusion of the main story shows that Rainbow Dash blames herself for her mother almost getting killed by Brainiac, at least until Firefly convinces her it isn't.
It's Not You, It's My Enemies: Rainbow Dash tries to use this on Thunderlane after Brainiac threatens those close to her, but he refuses to let her go.
It's Personal: Somehow both Zod and Brainiac manage to achieve this by their own designs. Brainiac gets especially personal when he injures Firefly.
Kirk Summation: When Rainbow Dash first runs into Trixie in Seaddle, Trixie tries to say they're Not So Different by pointing out that they're both braggarts. Rainbow shoots her down by pointing out that at least she knows to stop before someone gets hurt, and then when Trixie tries to challenge her to prove who's superior, Rainbow just walks away, saying she's not worth it. Trixie has a brief Villainous Breakdown at this.
A month before the start of the story, Twilight, Pinkie, and Applejack went camping, and Pinkie ended up accidentally burning one of Twilight's books, causing her to have a Freak Out that outshined the one she had in "Lesson Zero". AJ and Pinkie calmed her down, but both swore they'd never go camping with her again.
Celestia and Luna both refer to earlier encounters with Kryptonians, with Luna saying that she owes them a "great debt".
Rainbow Dash get a moment like this when trying to break through Brainiac's Force Field in Chapter 23, after Brainiac says that she must comply with his plan:
Rainbow Dash: No... I... won't! (breaks through to save Scootaloo)
Red Oni, Blue Oni: Red Dash and Blue Dash; one is based off of Rainbow's physical and emotional prowess, while the other is based off her intelligence and logic. Rainbow gives each of them a "The Reason You Suck" Speech before beating them.
Retcon: Originally, Soarin' was supposed to be Rainbow's love interest, but this was changed to Thunderlane and Soarin' was made Diana's love interest.
It underwent another, changing Rainbow's Kryptonian name from Kara Zor-El to Kara Jor-El (to better match with Kryptonian naming styles)
The Reveal: General Zod has been posing as Prince Blueblood for the last five years.
Sadistic Choice: Brainiac offers Rainbow one: if she saves Scootaloo, a bomb planted in Cloudsdale will detonate and kill everyone, but if she goes and saves Cloudsdale, a power surge will kill Scootaloo. Rainbow Takes a Third Option and decides to save them both.
Sealed Evil in a Can: At the end of the story, Brainiac is petrified by the Elements of Harmony, and Rainbow Dash puts him in storage in the Fortress of Solitude for safe keeping.
Celestia, the Mane Six, and Firefly become this for Rainbow Dash.
Thunderlane figures out who she is during her fight with Brainiac.
She and Batpony become this for each other in one of the side stories, when he deduces her identity, and she uses her X-Ray Vision to see that he's really the real Prince Blueblood.
Sequel Hook: It ends with two. First, there's the fact that Silversmith is still free, and has samples of Supermare's DNA to experiment on. More importantly, the last scene shows Darkseid opening a boomtube to Equestria, setting the stage for the main Justice League of Equestria story.
(blocks blow) "Iíll only kneel to two ponies. And youíre not one of them!" (throws Zod through a wall)
In the second arc, there's her refusal to submit to Brainiac's Sadistic Choice and letting him break her, instead saving Scootaloo and rushing off to stop the bomb in Cloudsdale.
"Welcome to Equestria, Brainiac."
Smug Smiler: Silversmith. Rainbow Dash is disturbed by it.
Sneeze of Doom: In one of the side stories, Rainbow Dash's super-breath causes her to freeze a butterfly that had refused to shift from her nose, and then Fluttershy after she takes the butterfly to her. Both are unharmed by the end. The first sneeze also strips several apple trees of apples and leaves.
Stealth Hi/Bye: Batpony (the local Batmanexpy) does this several times to Rainbow Dash in their multipart side story crossover.
Strawman Has a Point: In-universe; during her interrogation, Rainbow admits that she would be a big threat if she ever went rogue, and even admits that some things that Silversmith was saying seemed true enough (on the surface)
Superdickery: Discussed; After becoming Supermare, Rainbow begins to contemplate if performing pranks while dressed up as Supermare is a bad thing. Trixie returns and threatens to destroy Ponyville with an Ursa Major before Rainbow can make up her mind.
Take That: The entire Red and Blue clone side story is one to the Superman: Red & Blue storyline.
Taking You with Me: In the final battle of the first arc, Zod overloads his magic in an attempt to blow up both Rainbow Dash and Canterlot. Rainbow flies him into the upper atmosphere before that happens, but she is badly injured in the blast.
Thou Shall Not Kill: Rainbow Dash, just like canonical Superman. She get very close to breaking that rule when Brainiac seemingly kills Firefly.
"Would your mother have wanted this, Rainbow Dash?"
Why Don't You Just Shoot Him?: After defeating her in their first fight, Zod lets Rainbow Dash live (albeit slowly being killed by a Kryptonite necklace) so that she can watch his Evil Plan to assassinate Celestia succeed. After she escapes and prevents this, he admits it was a mistake and decides to kill her.
Xanatos Gambit: Zod sends the Flim-Flam brothers to attack Ponyville in order to "test the waters" — if they succeeded, he would have had an unstoppable weapon at his disposal, and if they failed, he'd get a look at what he's up against.
Xanatos Speed Chess: Brainiac is constantly updating and modifying his plan, especially when he deems Steel Wing more trouble than he's worth and choosing to ally with Silversmith instead.
Your Costume Needs Work: Twice; when dealing with Silversmith's mooks in Manehattan, one of them says that Rainbow is too short to be Supermare, and that the colors on her costume are wrong. Later, in the crossover side story with Batpony, another thug says that she's too thin and her mane is the wrong color.
Adorkable: Twilight's reaction to meeting Diana. Apparently Cadence told her all about their antics as foals, so Twilight's overjoyed to meet her. Soarin' has to remind Twilight to focus on the problem at hand.
Diana's statement when facing down Ares' demonic army:
"Come, you spawns of hell! Come and face me, and I swear by Athena and the gods of Olympus that I shall send you back to the pit from whence you came!"
Ares himself gets a villainous one during the climatic fight between him and Diana:
"Did you honestly think you could challenge me?! I am the God of War! I killed thousands during the War in Heaven! I drove Nightmare Moon from the steps of Olympus, and I broke the walls of Tartarus! Why do you not see that anything you do is pointless, Amazon?!"
Badass Normal: Soarin' isn't a demigoddess, and he doesn't have magic at his disposal. But he fights Ares' demons alongside Diana and Twilight all the same.
Big Damn Heroes: Soarin' gets two moments. First, he saves Diana when Ares is about to kill her in their first fight, carrying her to safety. Then, at the climax, he manages to save her from being sucked into Tartarus with Ares, with her own lasso, no less.
Boring, but Practical: Diana takes a coil of rope into the first test during the tournament (at Athena's suggestion).
Butt Monkey: Soarin' is at the mercy of an island's worth of Amazons that might kill him at the slightest provocation, not to mention Athena messing around in his head.
Calling The Old Mare Out: Diana does a less severe version to Hippolyta, calling her out for putting her own personal preferences before the will of the gods.
Can't Get Away with Nuthin' : In chapter 2, Diana is participating in a dare to steal eggs from a phoenix nest. She hesitates, and the phoenixes chase her away and she gets several "I told you so"s from the other Amazons.
The Cameo: Rainbow Dash as Supermare makes a brief appearance during Diana's flight in Chapter 6.
Culture Clash: Diana's upbrining as an Amazon does not mix well with Equestria's more open social norms.
Cutting the Knot: Diana does this literally during the second test of the tournament.
This also ends up being how Diana defeats Ares' master plan — rather than trying to remove the Alicorn Amulet from its position or figure out how to use it, she simply destroys it with her tiara.
Did You Just Flip Off Cthulhu?: During the Nightmare Moon Incident, Diana pounces on Nightmare Moon when she tries to kill Hippolyta. At the time, Diana is less than one year old.
Does Not Like Colts: Most Amazons, but especially Phillipus; she tries to kill Soarin' on sight when Diana brings him into Themyscira, and tends to act more aggressive when there is even the slightest mention of the mortal realm.
Everybody Hates Hades: Subverted. Hades shows up, but outright refuses to aid Ares in his plans, not even when offered a way to ensure he gets plenty of souls for his domain (stating that everyone ends up there eventually anyway). In fact, the only way Ares gets any support from Tartarus is that Persephone tells him about the Alicorn Amulet's abilities, because she somehow thinks she's helping her husband out. As it turns out, she was helping — she was counting on Ares failing and ending up sealed in Tartarus at Hades will, something he's been trying to get done for a long time.
Evil Cannot Comprehend Good: Ares seems honestly confused that Diana will fight for the mortal realm after being raised in a culture that hates it.
Hoist by His Own Petard: When the portal Ares opens to Tartarus is sealed, he ends up sucked inside. And due to the rules of the Alicorn Amulet's magic, he's now bound to Hades' will, and the latter is keeping him prisoner.
How We Got Here: The story opens with Soarin' waking up on Themyscira and being confronted by Diana, with the next couple of chapters being spent showing her backstory and how he ended up there.
Mythology Gag: Diana's backstory is the old "made of clay" backstory, with the Elements of Harmony rather than the gods bringing her to life.
Much of the story is based on the 2009 animated Wonder Woman movie. Or rather, the tvtropes page for it, as the author admits to not having seen it yet.
Not So Different: Ares plays this during his discussion with Athena, saying that she manipulates the mortal realm just as he does.
Pals with Jesus: Hippolyta is very good friends with Athena, Celestia and Luna, and Cadence grew up alongside Diana.
Really 700 Years Old: Diana was born/made one year before Nightmare Moon's attack, making her almost a thousand years old, yet she is physically the same age as the Mane Six.
For that matter, Cadence was born shortly before Diana, meaning she's just as old, but again, doesn't look that much older than the Mane Six either.
Red Oni, Blue Oni: Hippolyta and Phillipus; the former is much calmer and willing to listen to reason (to some extent), while the latter is more impulsive and willing to resort to violence.
Screw This, I'm Outta Here!: Officer Golden Star initially helps defend Manehattan from Ares' demonic army, but around the time Twilight shows up empowered by the Helmet of Nabu, she decides she's out of her depth and leaves the area.
Sealed Evil in a Can: Ares' master plan is to unleash the army of demons created during the Olympians' war with the Titans, which were sealed away in Tartarus. He succeeds, but Twilight/Nabu sends them back, and Ares himself ends up sealed with them when he's sucked into the closing portal, and is let stuck as Hades' prisoner.
Sequel Hook: Like Mare of Steel, it has two, one for its own personal sequel, and one for the main JLE fic. The former is the penultimate scene showing Ares, trapped in Tartarus, setting up a potential Villain Team-Up with Circe. The latter is the last scene, where Athena informs Hippolyta that Ares' plan has resulted in widening a crack in reality that can't be fully sealed, and that Apokolips can take advantage of.
Shut Up, Hannibal!: During the Final Battle, Ares derides the mortal realm and asks why Diana is bothering to defend it. She responds by saying that while she may not have originally thought much of Equestria, she's seen enough good in the ponies there to believe in them, and she'll never stop defending them.
The Social Darwinist: As befitting a god of war, Ares believes in rule of the strong over the weak. Which to him means the gods ruling directly over the mortals.
Stealth Prequel: Surprising enough, while this happens sideways to Mare of Steel, it turns out to be a secret origin story for this world's version of Doctor Fate.
Taking You with Me: When Ares is being sucked into Tartarus, he tries to drag Diana in with him, but Soarin' saves her.
Time Skip: The majority of the first chapter takes place one thousand years before Luna's return; it skips to the modern era in chapter 2.
We Can Rule Together: Ares offers Diana the chance to rule by his side as he conquers the world. She naturally refuses.
Weirdness Coupon: Soarin' is initially shocked to see Diana, an Earth Pony, fly under her own power, but quickly gets used to it, admitting that with all the weird stuff he's seen in such a short period of time, it's nothing to get worked up over.
The Worf Effect: It's close, but Diana ultimately loses her first fight with Ares, and has to be rescued by Soarin'.
The effect is still active during their rematch in Manehattan; while still able to fight evenly, Diana slowly gets beaten down by Ares' superior might. Twilight, empowered by the Helmet of Nabu, is able to fight him more evenly.
You Shall Not Pass: While Diana is fighting Ares in Manehattan, Twilight and Soarin' are tasked with keeping his army of demons from reaching the city proper.
In Brightest Day, In Blackest Night provides examples of:
Art Shift: When the ring is speaking, it's printed in green.
Butt Monkey: The ring's treated Shining like one so far.
Arbitrary Skepticism: This is despite Cadance having had tea with an alien superhero and being best friends with a demigoddess - which, oddly, is pointed out by Cadance herself beforehand when Shining says that he doesn't expect her to believe him.
Composite Character: Shining seems to be taking on aspects of several of the canonical human Green Lanterns (Hal Jordan's origin, John Stewart's military background, Kyle Rayner's self-doubts)
Distress Call: Shining first outing as a Green Lantern begins when he responds to one and finds that it's a ship that's been attacked by Manhunters.
Weaksauce Weakness: Yellow, for the Green Lantern rings. Shining seems to be the only one who's noted how odd this is.
Why Did It Have to Be Snakes?: Shining Armor is implied to have developed a fear of Changelings due to his experience with Chrysalis. Since Green Lanterns are explicitly chosen for their ability to "overcome great fear", this will be plot-relevant.
A Dark Knight Over Trottingham provides examples of:
Foregone Conclusion: Being as it starts seven years before Mare of Steel, we know it's only a matter of time before Zod kidnaps and replaces Blueblood.