WMG / Chrono Cross

Serge is the reincarnation of Magus, aka Janus, from the first game in the series, Chrono Trigger.
It's implied that most of the cast from Trigger died. "Radical Dreamers," a Japanese-only game which became a prototype of Chrono Cross, directly states that "Gil" is Magus, but this angle was dropped and "Gil" became the character "Guile." Yet in a letter written to Kid, the reincarnation/daughter/clone of his sister Schala, it says that he is close by and protecting her and that they have to find each other. Kid and Serge can't be together because the Reset Button in the Good Ending erased Serge's memories of her and she'd be intruding; but Kid's next reincarnation is shown looking for Janus. Very reminiscent of "A Chinese Ghost Story." Also, Reincarnation makes previous lives genetics a non-issue.
  • Strangely enough despite the game claiming Serge would lose all memory of the events of the game, when you are transported back to the beach with Leena, Serge clearly remembers everything that had transpired. Either this loss of memory was meant for everyone except him and Kid or this was quite an oversight by Square.

Serge and Guile are both Magus
At the end of the Bonus Dungeon in Chrono Trigger, we see that regardless of whether your party killed Magus or not at the Road Cone; a Magus from a different timeline is still alive. If you survive the Dream Devourer, this Magus refuses to leave and gets his memory erased by Schala and presumably becomes Guile. The Magus who was killed by the Masamune was reincarnated into Serge but due to the connection of having been previously killed by the combined power of Lavos and Zeal (the Masamune) he has a link to Schala.
  • Why would Lucca write the letter if Magus Prime was killed in her timeline? Reincarnation!

Miguel is Crono, or at least one universe's version of him.
  • While the spirits of Crono, Marle, and Lucca appear frequently throughout the game, it is said that these are "echoes" of a timeline which no longer exists. This has lead many fans to speculate as to exactly what happened to Crono himself. Proponents of this idea have several pieces of (admittedly circumstantial) evidence. Miguel's red hair, the name of his daughter (Leena, as a possible reference to Leene), his absent wife, his position in relation to the Crono-spirit (it always stands near/over him), his status as possibly the most difficult boss in the game, his knowledge of the future, his approximate age, and several ambiguous lines of dialogue are all cited as evidence. It is believed that he may have changed his name and moved to Serge's home after the fall of Guardia, possibly so that Leena could be brought up in peace. Not only the hardest boss, but one of only three white innates. Which matches Crono's Light power-set.
  • Alternatively, Crono and Marle were killed in the fall of Guardia, and entrusted the safety of their daughter Leena to their close friend and bodyguard Miguel, who fled to distant Arni Village. Leena was so young when this happened that she assumes her true father is Miguel, who never had the chance to tell her the truth. At the very least Leena has to be their daughter. She looks like Marle and has Chrono's red hair. That can't be a coincidence.

Harle is the other world version of Kid
Ignoring the makeup, they are similar looking, and neither character is shown to have a counterpart in the opposite world. There's also a fortune that was the same for both of them. "In your eyes, I perceive...both the look of a beauty and the look of a beast. Be mindful not to bring about your own end, my dear! A dream lies in wait, reaching out to engulf you!" Plus, they both have the same Catch-Phrase (That they are gonna kick your butt/derriere to the moons.)
  • There's only one Harle, but there is two of Kid. Word of God puts Kid(H) up on the Zenan mainland and Harle(H) was frozen in the Dead Sea alongside the Home World Dragoons and Lynx(H). However, this WMG still might not be Jossed. The fact there are two Harles (one in the Dead Sea) and two Kids (one on the Zenan mainland) does not preclude Harle still being Kid's physical/soul double, either through Schala's own actions (her corruption by Lavos creating a self to "destroy what she loves so much") or the Dragon Gods using her body as a template. It just means that like everyone else, Harle and Kid were split when Serge's dying/being saved created the alternate dimension. The original source of all the physical, soul, and fortune similarities would still be the fact they were both daughter-clones of Schala, it's just that instead of being Kid's Evil Twin (a literal biological counterpart), Harle would be her Evil Counterpart (a metaphorical one created by the Dragon Gods or Schala herself to combat Kid's actions). Then they both got split by the dimensional distortion.
  • They are both daughter-clones of Schala. The reason you don't see Harle's height and weight is that they would be identical to Kid's. Harle was a clone created by the Dragons to unseal FATE and let them take over the planet, while Kid was created to save Serge's life when he nearly drowned. To clarify, Kid is Schala's Daughter-Clone created to save Serge. Harle then, is made by the Time Devourer (Lavos) through the Dragon God to essentially prevent itself from being deleted. The Dragon God failed to defeat Serge in accordance to the Time Devourer's Will, and Harle dies. Strangely both Kid and Harle has similar fortunes...except for one key difference. Kid has an opmistic future while Harle has a crushing fate instead.
  • It could also be that Harle isn't DIRECTLY related to Kid, but perhaps due to Harle being the seventh Dragon God she chose the only human form she had access to in order to reach Serge. Since Schala is linked to Lavos, which also has control of the Time Devourer/Dragon Gods it was the easiest template to gain access to.

Magus is not present in Chrono Cross because he discovered a new threat to the planet
This explains why he was AWOL when Serge and Co. were trying to save Schala. Admittedly, it is hard to think of a threat more serious than a being that can devour all time and space. Maybe he discovered the source of Lavos and figured out there's more beings like it. After all, it's spelled out in CT that the apocalypse is part of Lavos' reproductive cycle; it arrives from the sky, feeds on the planet for millions of years, destroys it and spawns baby Lavos to shoot off into space and find other planets. There's likely no single source, and even if there was, Magus would be unlikely to care about the well-being of other planets so long as his sister is still an issue. This means he went even further back then 65,000,000 BC to find the creature that created Lavos, thereby preventing it from existing and creating yet another major alternate dimension. He's working on cleaning up that mess.

Schala is the real villain.
The DS port established that she so hated humanity that she made it nearly impossible for them to rescue her and thus save themselves and really, life itself. Chrono Cross is entirely her fault. Her only method given created war and torment for millions and had Belthazar not been a better Chessmaster than her, any one of the steps taken could have wiped out life on Earth. Of all the people in history she could have saved, people in the throes of suffering, she plucked out a kid she fancied. After the credits, she's stalking him again after resetting his memories. Nobody has been saved - all you did was give her the freedom to start all over again.

How did the change start? Her pacifism was extremely perverted by Fusion Dance with Lavos. Lavos wants to use her powers to stay alive, but has to distort her philosophy in order to do so. Likewise, Schala/Lavos sends the means to stop themselves to Kid and Serge. The Chriosphinx also had a demented "How dare you use violence to prevent me from killing you!" mentality.

The cast of Chrono Trigger didn't die.
They grabbed a couple of those dolls they used to replace Chrono the first time to fake their own deaths. Now they are hiding somewhen in the time stream. After all their deaths are based solely on assumption. Nothing is explicitly stated about their deaths.
  • Lucca could have been captured by Lynx and holed up in Chronopolis. Lynx wanted her to undo the Prometheus lock and in order to do that he would need to take her to Chronopolis alive; he would have nothing to gain from killing her outright.
  • If you include Crimson Echoes as canon, then confirmed for Crono and Marle, at least. Marle gives up Guardia without a fight and leaves with Crono to deal with the aftermath of that game's effects on the timeline. As far as we know, they're still alive.
  • Robo- he's reduced to a program deleted during the course of the game but computer programs can be copied and modified without destroying the original. It would be way out-of-character for Lucca to put Robo in mortal danger without some kind of (possibly literal) backup plan. It's more likely that she just used a copy of Robo's program for the Prometheus lock before sending the original safely back to the Good Future seen in Chrono Trigger's credits. She has a mini robo in the end-game cutscene after all.
  • It's bizarre that they sit back and do nothing while Porre subjectifies the rest of the world to their rule and horrible time-monsters are wandering around. However, they should probably know that they're in an altered Bad Future that will be retconned away once Balthazar's Unwitting Pawnnote  does his stuff, unless Balthazar was so incredibly dickish as to not give them a head's up. They're probably just lying low trying to stay alive until history resets to its no-FATE-Elements-or-El-Nido state upon the Devourer's undoing and and not messing with Porre or events in El Nido for fear of what might happen if persons of their power- and understanding of events- get mind-whammied by the emotion-and-memory-altering Records of FATE.
  • Was Marle an only child? Doan in 2300 AD is a descendant of the kings of Guardia, so she needs to be alive at the very least to have reproduced.

The cast of Chrono Trigger are alive after Chrono Cross
Porre defeating Guardia was "allowed" because the Guru of Time was working with the Chrono Trigger cast to set up the circumstances to create the Chrono Cross. Ironically, since the Time Devourer was outside time and the result of paradox already; once it's been removed then all the changes to the timeline required to fight it no longer occurred without so much as a time hiccup. FATE no longer exists because it was created to combat the Time Devourer, likewise the Porre army being technologically advanced wasn't needed either. The Dragons no longer exist because they were shunted into this timeline to balance Chronopolis and FATE. Dalton does show up in Guardia, but gets his butt kicked again.

Schala had to do some editing in order to make the post-Time Devourer timeline
Most of the El Nido islands were only there because of Chronopolis and the Dragons. Despite the reset, she didn't want Serge and company to not exist, so had to manipulate things so that the islands and the cast still came into being. After the Chronopolis Research Institute made El Nido for company housing (or something like it) after not vanishing in 2400, Serge and company were born naturally and raised in their proper era of The Future (since they were, technically, time-displaced in the Devourer-affected timeline), and all the El Nido characters are simply researchers, support staff, and families, plus workers of the inevitable related and unrelated industries that sprout up in company towns that size. Kid still exists because of the Power Girl Effect, falling through the cracks unaltered and unerased as the timeline repairs itself. The ending was sufficiently vague as to obfuscate the fact that its taking place in 12,400 rather than 1,020.

Guile isn't Magus or a brand new character...he's Magus's cat Alfador.
At some point after Chrono Trigger, Alfador ended up in the 1000s AD (maybe he snuck on board the Epoch while the party was doing other stuff). While searching for Janus/Magus (who lost his memory in the new ending of the DS version), he encountered the magician Sneff, who can turn humans into cats and back again. Sneff turned Alfador into a human, who adopted the name Guile and continued the search for his master. Further reasoning behind Guile being Alfador:
  • Guile's name in the Japanese version is Alf
  • Guile has purple hair, Alfador has purple fur
  • His element color is black, appropriate for someone whose master's alignment is Shadow
  • The fortune teller lady is extremely surprised to see what he looks like under his mask - maybe he's hiding some feline features?
  • Having originated from the kingdom of Zeal, Alfador may have absorbed some of Zeal's ambient magical power, explaining his magical abilities in human form

Chrono Cross' plot was sabotaged.
The game's original plot would have placed Chrono Cross as an actual sequel to Chrono Trigger. However, an executive, who was a Final Fantasy fanatic, feared that the game would fare better than the upcoming Final Fantasy IX, and managed to get his hands on the script so he could modify the narrative pacing and some other plot elements, so Chrono Cross's status as a sequel to Trigger would actually be contested, and FFIX would have a better reputation solely because of the plot.

Chrono Cross' plot is a result of Spring Time For Hitler
  • An executive Final Fantasy fanatic tried to make Chrono Cross confusing and dense so it would not eclipse Final Fantasy, and due to this action, it became most definitely a sequel. Yes, you could eliminate all references to Trigger and have a game that stands on its own... but if you preserve those references, the entire game makes sense. Serge's very existence threatens to undo everything the Trigger cast slaved for — Another World, where Serge dies, is the canonical world (Keystone T-1) that Trigger plays out in. Serge's survival, as explained by Balthasar, causes Home World to fission off. Because of the nature of the Time Devourer, if it is allowed to exist in any timeline, it will mature and devour everything.

The C&Ds of the fangames are a case of Creator Backlash.
Square has come to hate the Chrono series ever since the Magus-Guile issue. Which would explain perfectly the C&Ds on Chrono Resurrection and Crimson Echoes, and why Chrono Break will never be developed — they will not allow the games they so revile to be continued or expanded upon, even in fanon.

The Devs think that you should be dead.
The Mind Screw Gainax Ending of the game suggests that there is a Schala Kid-clone out there looking for you, in the real world. Now, this sort of thing happens to Serge because he dies in his "correct timeline", so the Magical Girl Schala sends her daughter-clone into the past to save him. But that doesn't change the fact that, without her interference, he should be dead. The ending sequence in the game depict a girl like Kid wandering around, who according to Wordof God , is supposed to be looking for the audience, the player. Does that mean that Square wants us all dead, but we're only alive because of a fictional character's interference? Or in some other metaphysical sense, because of SQUARE's interference?

Fargo was an Acacia Dragoon.
He had a falling out with Viper after the latter supported Porre in their war with Guardia. Fargo either thought they should have supported Guardia instead or just stayed out of the conflict altogether, which led him to leave the dragoons and become a pirate. He might have even met Zelbess right after that, bitter about his homeland being dragged into a war that had nothing to do with them, and on what he saw was the wrong side, to boot. Remember Nikki's song, when you were restoring Marbule? It's a dramatic re-enactment of what happened to Fargo after he left. It would explain why his daughter is a dragoon deva despite still being a kid (family connections and all), as well as Another!Fargo's surprising degree of honor for a bloodthirsty pirate. Being an ex-knight will do that to you.

Serge's great-great-great-etc. grandfather on his dad's side was Tata from Chrono Trigger.
Character art of Tata looks quite a bit like Serge (and like his father when we see what he looked like in human form) if you account for the differences in their art styles, and we already know that in this game world people from 600 AD can look ridiculously similar to their modern descendants even though there are hundreds of years between them.

Maybe when Tata grew up he couldn't stand the shame of everybody in his town knowing about that time he let everyone think he was a hero when he never ended up doing a heroic thing in his life, or maybe one of his kids or grandkids got tired of the Fake Ultimate Hero in their family being a bit of a town historical joke, and ended up wandering away to settle in the little out of the way archipelago where their family remained from then on. Or maybe one of his descendants just liked tropical locations and decided to move there. Either way, eventually Serge is born and he unknowingly more makes up for his forefather's lies by being a true hero.

Demi-humans are of mixed human and fiend ancestry.
Since the events of Chrono Trigger (specifically, the side quest to defeat Ozzie, Flea, and Slash) result in fiends (or Mystics, for those who insist on using the SNES version's translation) and humans being on good terms in the present day, it's possible that in the new good future established by the defeat of Lavos, there are fiends employed at Chronopolis. When Chronopolis is sent back in the Time Crash and FATE has its inhabitants populate the newly-created El Nido, some of the fiends interbreed with humans. After many generations, pure-blood fiends are mostly bred out and demi-humans become their own distinct race.

Lynx becoming involved with Porre was all part of FATE's design.
Now obviously Lynx wouldn't do anything without FATE's directive, so let me be more specific as to my meaning. FATE's original prime directive was to make sure that no one in El Nido interfered with the Zenan mainland, so as to prevent the events of Chrono Trigger from being accidentally undone. To that end, when Porre rose as a great power and overthrew Guardia, FATE had Lynx join General Viper as a master strategist under the supposed auspices of keeping Porre out of El Nido, all while secretly being The Mole who also worked for Porre. The idea was to play both nations against each other, since this would keep people (like Viper and the Dragoons) too busy to go looking for the Frozen Flame and cause a change in the timestream at Chronopolis by mistake (or just interfere with her ability to direct events, as happened when Wazuki and Miguel's mission ended up severing her link to the Flame).

At the same time, however, because this occurred after Lynx's failed (or successful) attempt at drowning Serge, FATE had realized that because her mission was compromised without the Flame, it didn't really matter at that point if El Nido interfered with Zenan. What was more imperative was getting the link to the Flame back. So she directed Lynx to join both Porre and Viper Manor so as to give him access to two different sets of armies—in Home, as a means to break through the barrier around the Dead Sea/Sea of Eden; in Another, to coerce Serge (once he contacted a Record of Fate and revealed he was still alive) into helping him, or use the Dragon Tear upon him. (Her making use of a Dragonian artifact like that was likely an attempt at subverting the Dragon Gods' plans with a Spanner in the Works, but instead made her an Unwitting Pawn to both the gods and Belthasar.) Once the Flame was hers again, she would then either have had Lynx betray Viper so that El Nido fell to Porre (as it did anyway in Home after the dragoons' disappearance), or crush Porre, whichever would preserve the future timeline better.

As to why Lynx of Home World led the dragoons (and Harle) into the Dead Sea...firstly, to try and break down that barrier so he could get back to the Flame, but also to eliminate the dragoons so that El Nido would fall to Porre, as FATE had planned all along (to keep El Nido from interfering with the timeline). Harle getting caught in what happened was either a lucky break for FATE, or if she somehow had figured out Harle's real allegiance without her catching on (which she might have, since she knew the Dragon Gods were trying to break free of her), a clever way to also ruin the Dragon Gods' plans. Lynx getting caught in it too just made the plan an accidental Thanatos Gambit.

Chrono and Marle had a crossover with the The Docter to fight the Daleks.
It's too hard to accept that they were killed by a Red Shirt Army led by a loser. Besides a crossover with Chrono Trigger and Doctor Who would be awesome!

The Dwarves were completely responsible for the acidity of the Hydra Marsh
Somehow, a single swamp in the entire world has an ecosystem that depends solely on the presence of a creature whose secretions maintain the water's PH levels and keep it from turning into an acidic wasteland incapable of supporting any life. Said swamp also houses the dwarves, who are capable of manufacturing a Steampunk tank. Things like that don't exactly pop out of nowhere; a manufacturing plant of some sort would be required to make the components and put the whole machine together, and plants aren't exactly the most environmentally-sound things either. Thus, we can conclude that the swamp's acidity came from their factories. The dwarves aren't as environmentally-conscious as they like to claim and they never tried to be because they happened to share their home with an animal that made it easy to live their way of life consequence-free.

Lucca is not dead. She just got transported to the Xenogears dimension.
That is why she shows up in cameo near the beginning of Xenogears. Hopefully she didn't die when Lahan got destroyed...

Arni is primarily a Zenan Mainlander village
That is, mostly populated by Zenan immigrants and descendants of immigrants who arrived no earlier than the settlement in 920 AD. There are some exceptions, such as Belcha the chef who seems to be from Guldove (and therefore be of older El Nidan ancestry) and the village may have existed before 920 AD, but a few facts suggest Zenan dominance. One is their negative attitude towards demi-humans, an attitude shared by the Mainlanders of Termina but not by the native El Nidans of Guldove. Another is their chief Radius (in home world), who hails from Zenan and was a prominent Acacia Dragoon; Arni may have quite quickly become a retirement community for people from Termina and Viper Manor. There's also the fact that culturally, Arni moves very much in the orbit of Termina and Viper Manor, attending their festivals and such, while Guldove (confirmed to be populated by the original humans of El Nido) maintains a cultural connection with the Dragonians and demi-humans. This would also make sense given that Arni is on the main island, and the new Zenan Mainlander immigrants seem to have quickly coopted the main island as their territory, pushing demihumans, along with those humans who didn't want to assimilate to the new culture, to the periphery.

Lynx/FATE doesn't acknowledge Harle's existence.
Despite being supposedly Lynx's right-hand jester, he never once mentions Harle. He never once looks at her, either. The only time you see them together is in the orphanage flashback, where Lynx doesn't acknowledge Harle's existence. One has to wonder if Lynx could even see Harle, or if he even knew she existed. Maybe the Dragons made her invisible to FATE.

The Green Dragon had given up on the plan and had come up with a new one.
The Green dragon, unlike most of the others (The black dragon gets a pass because he's been asleep for a long time) isn't very interested in testing Serge. Instead, his main goal is satisfying his own hunger. This seems odd, considering how important Serge is to their plan to defeat FATE. Either he's given up, or he has something else in mind.

Specifically, Leah. This cavegirl is implied to be Ayla's mother from prehistoric times, before Lavos fell and the Reptites lost. If she were assassinated, the ancient humans would lack a leader and might have been wiped out. (Unlikely, but the dragons might or might not have realized just how unlivable the world was for the reptites after Lavos fell.) If Leah is not in the party when they meet with the dragon, his entreaties to "Come hither... And now for lunch" seem directed at her more than the party - she comes closer than the others, giving the impression that the battle starts from "Lynx" dashing in to intercept.

The Serge Kid reunites with and the Serge the player led through Chrono Cross' story are not necessarily the same.
Serge can be interpreted in many different ways, and because Chrono Cross is about alternate timelines, all are equally valid. So, if Serge left Kid hanging at every opportunity, or wasn't willing to break up with Leena for her, the promise at the end might have referred to Schala's intent to find a version of Serge who did love her. (Maybe even the Radical Dreamers' version.)

The Dragon God was not Gaia's Vengeance at all. That was just propaganda it decided to go along with
It's true goal and motive was carrying out Lavos' revenge on humanity, its mortal enemy. All the statements that humanity was Lavos' successor were planted there in order to shake Serge's resolve, but it was just a bunch of half-truths. All of the planet's biosphere was modified by Lavos, so saying that Humanity is unbalanced because of Lavos is a large and blatant misrepresentation.

It's unclear how independent the fragmented dragons were, and how deep the Time Devourer's influence ran. But Harle at least, knew about it all along, as shown when she tried to talk down kid.

The very fact that Home world Marbule (and to a lesser extent Hydra Marsh) can have a happy ending was a counterexample, showing that coexistance is possible, and something to strive for. This point is additionally driven home by several characters' quotes at the top of Terra Tower. Draggy and Irenes, for instance, outright reject the dragons' party line.

Finally, it might have been a deliberate choice on the localisers' part to name the fused dragon "TimeDevourer" in the battle. It was meant to underline the point that the Dragons had all been Lavos' sockpuppets. Serge had seen through them and realized that they couldn't be what everyone said they were. They had half a point, but it had been long since seen through and refuted.
  • Not just the localizers. This video shows that the "Dragon God" was called 時を喰らうもの, or Time Devourer, in the Japanese version, too.

The hypocrisy was intentional.
The Dragon Gods, the dwarves...the answer was never in one side unchallenged, but Science and Nature mixed together just right. The dwarves were science and nature mixed wrong.

The last scene in the main credits would have been a stealth sequel hook to Chrono Break.
It's a possible impression had fans not notice a creator comment claiming that the unexpected live-action sequences are essentially non-canonical, but that almost sounds as if a hint of a potential sequel's plot was sweeped under the rug due to the uncertainty of future installments. Going by what the game indicates alone - just what is Kid or/and Schala doing in what appears to be 1999 A.D.? This is the year that the Day of Lavos occurs. One wonders what they had planned...

Poshul is somehow related to the Chu-Chu species from Xenogears.
She's fuzzy, pink, roughly equal parts adorable and annoying, and able to become a giant when some sort of limiter is removed. What more can I say?