History AlternateUniverseFic / AnimeAndManga

* ''Fanfic/{{Freefall}}'' is a real-world AU crossover fic of ''Manga/TsubasaReservoirChronicle'' and ''Manga/XxxHolic'', among many other Creator/{{CLAMP}} works, that has no magic, time-travel or monsters- and yet manages to be just as complex and involved as the original canon.

* Gregg "Metroanime" Sharp's ''[[http://www.asynjor.com/fanfic/sharp.html The Bet]]'' is a cycle of stories based around a competition by a group of gods, demons, spirits and the occasional mortal to see who can make the biggest change in one of several "standard" timelines (the {{canon}} versions of ''Manga/RanmaOneHalf'', ''Anime/TenchiMuyo,'' and ''Franchise/SailorMoon'' among others) with [[ForWantOfANail the smallest alteration]]. Each entry in "The Bet" is a small Alternate Universe Fic. ''The Bet'' inspired many contributors and imitators, and turned Alternate Universe Fics into sort of a cottage industry for Sharp.

* In ''Manga/JoJosBizarreAdventurePhantomBlood'', before [[BigBad Dio]] discovered the [[ArtifactOfDoom Stone Mask]]'s [[OurVampiresAreDifferent true purpose]] and used it to reject his humanity, he was planning to kill [[TheHero Jonathan]] with it to MakeItLookLikeAnAccident. The {{doujinshi}} ''[[https://mangadex.org/title/12979/jojo-s-bizarre-adventure-towa-ni-shinu-made-doujinshi 'Till we Eternally Rest]]'' explores what would have happened had he gone through with this original plan. To wit, [[spoiler:Jonathan runs away from home and spends the following years fighting off his HorrorHunger while searching for a cure, and Dio becomes the sole heir to the Joestar family, but is unable to celebrate due to the fear that Jonathan may someday come back for revenge. Meanwhile, [[TheHeart Speedwagon]] and [[TheMentor Zeppeli]] find themselves at odds over whether to protect and help Jonathan, or MercyKill him before he can lose control and hurt someone]].

[[AC:''LightNovel/HighSchoolDXD'']]

[[AC:''LightNovel/ACertainMagicalIndex'']]

* ''Fanfic/MapleSugarPrettyCure'' takes place in a continuity where [[Anime/FutariWaPrettyCure Mepple and Mipple]] land in 2003 Toronto rather than 2004 Japan.

* ''[[https://www.fanfiction.net/s/7943103/1/Adventures-in-Womanhood Adventures in Womanhood]]'' is a work where the springs of Jusenkyo are permanent. Ranma goes to the Amazons for help adjusting to her body, leaving her panda father with the guide. She fights Shampoo for a place in the village and gets training in the amazons ways and fighting. Another elder hates outsiders and plans to kill Ranma but Ranma beats her and her traitorous plans are discovered. Ranma goes home to meet her mother and is accepted. She goes to Furinkan and becomes friends with Akane and quickly agrees to train her.

** Ryo Hoshi's ''Fanfic/ShadowsOnTheWalls'', which has a very strange mix of People In Jars, Lotus Eater Machine, and features some familiar faces traveling as a band...and has the Cargo Ship of Soul Eater Evans and booze. Oh, right, and Maka is a prostitute and Noah [[MemeticMolester does what he does best]].

* ''Franchise/PuellaMagiMadokaMagica'':

* ''[[https://www.fanfiction.net/s/6041027/1/Ah-My-Valkyrie Ah! My Valkyrie!]]'' revolves around [[Manga/AhMyGoddess Lind]] being asked to fill in for Belldandy, and thus being the one to grant Keiichi's wish of having a goddess to stay with him forever.

* A major point of divergence from the anime's original plot is explored in ''Fanfic/CodeGeassLelouchOfBritannia,'' where the author explores the WhatIf scenario where Lelouch is ''not'' banished from the court, and grows up in Pendragon. The answer? Quite a bit, but with some interesting parallels to the original timeline.

* ''Fanfic/HonorTrip'' is an extensive fanfic that chronicles an alternate universe where Cell becomes a hero, & makes amends for his previous deeds.

* ''Fanfic/{{ZeonQuest}}'' is a ''Gundam'' AU fic focusing on how one soldier has managed to already permanently alter the Universal Century.

* In [[Manga/JoJosBizarreAdventurePhantomBlood JoJo's Bizarre Adventure: Phantom Blood]]'', before [[BigBad Dio]] discovered the [[ArtifactOfDoom Stone Mask]]'s [[OurVampiresAreDifferent true purpose]] and used it to reject his humanity, he was planning to kill [[TheHero Jonathan]] with it to MakeItLookLikeAnAccident. The {{doujinshi}} ''[[https://mangadex.org/title/12979/jojo-s-bizarre-adventure-towa-ni-shinu-made-doujinshi 'Till we Eternally Rest]]'' explores what would have happened had he gone through with this original plan. To wit, [[spoiler:Jonathan runs away from home and spends the following years fighting off his HorrorHunger while searching for a cure, and Dio becomes the sole heir to the Joestar family, but is unable to celebrate due to the fear that Jonathan may someday come back for revenge. Meanwhile, [[TheHeart Speedwagon]] and [[TheMentor Zeppeli]] find themselves at odds over whether to protect and help Jonathan, or MercyKill him before he can lose control and hurt someone]].

* The ''[[Fanfic/BloodTies Tiesverse]]'' is a FanVerse that deviates after the 2003 series ends. ''The Conqueror of Shamballa'' never happened and Edward still lives in England two years post-series. Noah (spelled "Noa") is still around but she meets Ed after saving him from Envy. In ''Tiesverse'', homunculus who cross the Gate become vampires. Noa saves Edward from being killed by Envy and turns him into a {{dhampyr}} like herself. Together, they hunt vampires.

----

* ''Fanfic/ContractLabor'' is a ''Manga/LoveHina'' fanfic set in a world where Keitaro ISN'T an ExtremeDoormat. Also, Motoko, Su, Shinobu and Sarah are older than they are in canon, and Nyamo-Chan becomes a tenant at Hinata House alongside the other girls.
* ''Fanfic/LoveHinaLikeItCouldHaveBeen'' diverges from canon when [[Manga/LoveHina Keitaro]] runs into Haruka before entering the Hinata Inn and learns of the games Granny Hina is playing. When the girls refuse to accept him as manager, he simply leaves, and the girls are stuck with all the chores and maintenance he would have done.
* ''[[https://www.fanfiction.net/s/12953442/1/The-Key-to-Victory This is the key to Victory]]'' is set in a world where [[Manga/UruseiYatsura Ryuunosuke]] is chosen as Lum's opponent in the tag game, and ends up making an AccidentalProposal when Lum misinterprets her declaration that she will never let Lum go (before she can grab the Oni's horns) as a marriage proposal.
* ''[[https://www.fanfiction.net/s/2649455/1/I-ll-Be-Seeing-You I'll Be Seeing You]]'' is set in a world where [[Manga/LoveHina Keitaro]] is blind, and Shinobu is slightly older than in canon.
* ''Fanfic/{{Dominoes}}'' is the ''Manga/CaseClosed'' cast in the world of morally ambiguous Superheroes, with Shinichi as a reporter, Yusaku as an {{Expy}} of Batman, and Ran, Aoko, Kazuha, Hattori, and Hakuba as [[{{Expy}} Expies]] of the Teen Titans. And Kaito sees himself as their HeroAntagonist, of course.
* ''[[https://www.fanfiction.net/s/6041027/1/Ah-My-Valkyrie Ah! My Valkyrie!]]'' revolves around [[Manga/AhMyGoddess Lind]] being asked to fill in for Belldandy, and thus being the one to grant Keiichi's wish of having a goddess to stay with him forever.
* ''Fanfic/InTheCircleOfElementalArms'' is an ''Manga/OuranHighSchoolHostClub'' set in a world where ElementalPowers exist.
* In ''Manga/JoJosBizarreAdventure: [[Manga/JoJosBizarreAdventurePhantomBlood Phantom Blood]]'', before [[BigBad Dio]] discovered the [[ArtifactOfDoom Stone Mask]]'s [[OurVampiresAreDifferent true purpose]] and used it to reject his humanity, he was planning to kill [[TheHero Jonathan]] with it to MakeItLookLikeAnAccident. The {{doujinshi}} ''[[https://mangadex.org/title/12979/jojo-s-bizarre-adventure-towa-ni-shinu-made-doujinshi 'Till we Eternally Rest]]'' explores what would have happened had he gone through with this original plan. To wit, [[spoiler: Jonathan runs away from home and spends the following years fighting off his HorrorHunger while searching for a cure, and Dio becomes the sole heir to the Joestar family, but is unable to celebrate due to the fear that Jonathan may someday come back for revenge. Meanwhile, [[TheHeart Speedwagon]] and [[TheMentor Zeppeli]] find themselves at odds over whether to protect and help Jonathan, or MercyKill him before he can lose control and hurt someone.]]
* ''Fanfic/MarriageOfHeavenAndHell'' is a fic of ''LightNovel/HighSchoolDXD'' where the hero is a CelibateHero Angel with [[AccidentalPervert Accidential]], CovertPervert tendencies instead of an unabashed ChivalrousPervert Devil thanks to a CosmicRetcon caused by Halja, the Goddess of Death.
* ''Fanfic/FrozenMoonlight'' is a ''Manga/RurouniKenshin'' fanfiction where the main characters are modern day high school students.

* ''Fanfic/{{Downfall|Bleach}}'' is a ''Manga/{{Bleach}}'' continuity where Aizen never was the villain, instead [[spoiler:Unohana, you know... TeamMom... is the BigBad. Kyoraku and Ukitake follow her. Nel is Primera. Gin and Ran are Soul Society's resident experts on relationships. Rukia dies]].

* ''Franchise/FullmetalAlchemist'':
** ''Fanfic/FullmetalAlchemistThreadsOfTime'' focuses on the notion of Alphonse attaching Edward's soul to a suit of armor, and Alphonse obtaining automail limbs.
** The ''[[Fanfic/BloodTies Tiesverse]]'' is a FanVerse that deviates after ''Anime/FullmetalAlchemist'' ends. ''The Conqueror of Shamballa'' never happened and Edward still lives in England two years post-series. Noah (spelled "Noa") is still around but she meets Ed after saving him from Envy. In ''Tiesverse'', homunculus who cross the Gate become vampires. Noa saves Edward from being killed by Envy and turns him into a {{dhampyr}} like herself. Together, they hunt vampires.
** ''Fanfic/SonOfTheDesert'' is a ''Manga/FullmetalAlchemist'' fanfic that asks {{what if}} the Elrics were Ishvalan? The story details Trisha growing up in her village in Ishval and how she won over Hohenheim, how the Ishvalan genocide affected the Elric brothers' childhood and their dealings with the military.
* ''Fanfic/{{ZeonQuest}}'' is a ''Gundam'' AU fic focusing on how one soldier has managed to already permanently alter the Universal Century.
* ''Fanfic/{{Freefall}}'' is a real-world AU crossover fic of ''Manga/TsubasaReservoirChronicle'' and ''Manga/XxxHolic'', among many other Creator/{{CLAMP}} works, that has no magic, time-travel or monsters- and yet manages to be just as complex and involved as the original canon.
* ''Fanfic/NerimaMagistraNellyMagi'' is a retelling of ''Manga/NegimaMagisterNegiMagi'' with [[GenderFlip every character's gender reversed]].
* ''Fanfic/ThoughABirdCantFlyThatDoesntMeanItNeverWill'' is a ''Manga/OnePiece'' "What If?" fic in which Zoro's childhood rival Kuina is blinded instead of killed in her tragic accident. She grows up to be a BlindWeaponMaster who ends up joining the Marines in order to track down Zoro and find out why he's become a pirate.
* Given the nature of ''Webcomic/HetaliaAxisPowers'' and the liberal use of [=AUs=] by Himaruya himself, it's no surprise that there are a good deal of them:
** One example, though a DarkFic one, is ''Fanfic/AllHeEverWanted,'' involving an AlternateHistory where England keeps his alliance with Japan.
** [=AUs=] of the first type (contextual reassignment) are common as well, for example ''Fanfic/PartRightHalfWrongAThirdCrazy''.
** ''Webcomic/HetaliaAxisPowers'' fanfic ''[[https://www.fanfiction.net/s/12086351/1/Kanashī-Wütend-Desolato Kanashī, Wütend, Desolato]]'' is basically a WhatIf for ''[[https://www.fanfiction.net/s/11886910/1/Gankona-Unnachgiebig-Unità Gankona, Unnachgiebig, Unità]]'': [[spoiler:instead of supporting [[{{Polyamory}} Germany's, Italy's, and Japan's relationship]], what if most of the countries scorned and tormented them upon finding out? Things ''do not'' [[DrivenToSuicide turn out well]].]]
* ''Franchise/LyricalNanoha'':
** ''Fanfic/{{Game Theory|LyricalNanoha}}'' is a ''Anime/MagicalGirlLyricalNanoha'' fanfic in which Precia ''didn't'' go completely insane. Although still obsessed with reviving Alicia, she is a great deal more practical in her methods. This has numerous consequences that all follow logically from that divergence, which slowly build up until the plot goes spectacularly OffTheRails [[spoiler:when Nanoha decides to help Precia.]]
** The universe itself has also been tweaked somewhat, as the authors of the story have greatly expanded on the background, and altered several details that weren't internally consistent in the original work, which makes for a smoother narrative flow.
*** And the author also wrote a short AU called ''[[http://www.fanfiction.net/s/8000913/1/Another_Way Another Way]]''.
** ''[[http://www.fanfiction.net/s/7611727/1/Graceful-Degradation Graceful Degradation]]'' is a ''Anime/MagicalGirlLyricalNanoha'' fanfic where the TSAB is prevented from getting involved in the Jewel Seeds incident due to the Arthra getting damaged when Precia moves the Garden of Time while they were in the same relative proximity of it. Events then start to rapidly change from that [[spoiler: such as Nanoha fighting Precia Testarossa herself]], and then goes completely OffTheRails [[spoiler: when the Wolkenritter appear five weeks sooner than in canon]].
* ''Fanfic/LifeAfterHayate'' is an Alternate History of ''Franchise/LyricalNanoha'' where Nanoha's canonical injury between ''A's'' and ''[=StrikerS=]'' does not happen; instead, she is replaced by Hayate Yagami, who is killed and passes the Wolkenritter to Chrono Harlaown with her dying breaths.
* ''Franchise/PuellaMagiMadokaMagica'':
** ''Fanfic/PuellaMagiYuukoMagica'' is a ''Anime/PuellaMagiMadokaMagica'' fanfic in which the world-changing wish that Madoka created is something along the lines of "I want us to no longer be slaves to the Incubators", so now magic is rampant within her world. However, the magic is hidden from {{Muggles}} of course. It's supposed to be a prequel to a seemingly unrelated fic, though. At least Madoka gets to be a LittleMissBadass in this.
** There's also ''Busou Shoujo Madoka ☆ Mafia'', a {{doujin}} series which involves the girls of ''Madoka'' in a mafia setting, with Madoka herself as the BadassAdorable boss of her syndicate and the other girls as her enforcers.
* While the ''Fanfic/TamersForeverSeries'' mostly maintains the same continuity as the canon ''Franchise/{{Digimon}}'' series, it does {{Retcon}} the epilogue of ''[[Anime/DigimonAdventure02 02]]'', as well as the events of ''Runaway Locomon''
* '' [[Fanfic/BlackRockShooterHonestHearts Honest Hearts]]'' by dan-heron turns Mato and Yomi's lovers quarrel into the lid on an even bigger can of worms
* ''Fanfic/TwilightPrettyCure'' is a ''Anime/PrettyCure'' AU. While inspired by the canon series in various ways, it takes more of a serious approach in addressing issues like the evils of bullying, discrimination, child abuse, etc. But it still keeps the "hope within darkness" theme that most ''Pretty Cure'' anime have.
* ''Fanfic/ABriefHistoryOfHistories'' switches around the backstories of each of the [[Franchise/SailorMoon sailor senshi]] and explores how this impacts their characters.
* ''Fanfic/AlabasterOrchestra'' is a ''Manga/{{Bleach}}'' fanfiction which portrays [[TheEmpire the Vandenreich]] [[GreyandGreyMorality more ambiguously]] and diverges [[spoiler: with Ichigo being captured after the invasion of the Soul Society, purged of his Shinigami side, and finally becoming a Stern Ritter of his own free will.]]
* ''Fanfic/LightOfTheSnowRedVillage'' is a ''Manga/RurouniKenshin'' WhatIf that answers the question "What if Kenshin and Tomoe had a daughter?"
* ''[[https://www.fanfiction.net/s/11144592/1/Lum-Sum-Purple Lum Sum Purple]]'' is a ''Manga/UruseiYatsura'' and ''Manga/RanmaOneHalf'' crossover where Shampoo is the one chosen as Lum's opponent, and ends up accidentally married to her.
* ''Fanfic/AGoddessComesToCall'' is a ''Anime/BubblegumCrisis'' and ''Manga/AhMyGoddess'' crossover, where, instead of wishing that Belldandy would stay with him forever, Keiichi wishes for the perfect girl for him, and ends up with Chihiro. Fifty years later, Linna accidentally dials the Goddess helpline and summons Belldandy, then proceeds to accidentally wish that she had a goddess like Belldandy around all the time.
* ''[[http://wariodude128.deviantart.com/art/The-Giant-Has-a-Giant-Mouth-Part-1-546531773 The Giant Has]] [[http://wariodude128.deviantart.com/art/The-Giant-Has-a-Giant-Mouth-Part-2-546534376 A Giant Mouth]]'' is a two part Manga/OnePiece fic that starts by asking what would happen if Luffy was completely taken out of the story and Aphelandra, one of the many women on Amazon Lily, became the protagonist instead.
* ''[[https://www.fanfiction.net/s/9264139/1/Urusei-Yatsura-Love-to-Skate Urusei Yatsura: Love to Skate!]]'' is set in a world where [[Manga/UruseiYatsura Ataru]] WASN'T the one chosen to be Lum's opponent in that fateful game of tag. Among other things, there's no DefeatByModesty (Lum lets Sora, the OriginalCharacter who replaces Ataru, win after he saves her from a nasty fall), and the AccidentalProposal occurs when Ataru goads him into rhetorically asking if he should propose, and it's taken out of context. Also, it's set in TheNewTens, Sora and Ten get on better than Ten and Ataru do, and Kurama is more willing to accept Sora as he is instead of trying to change him (mainly because he isn't a pervert, and his resultant harem is genuinely an UnwantedHarem).
* ''[[https://www.fanfiction.net/s/5273034/1/The_Goddess_and_the_Sky The Goddess and the Sky]]'' has the wish that should have gone to Keiichi going to Sora instead, who proceeds to [[AccidentalMarriage accidentally wish that Belldandy would marry her]]. As a result, Keiichi isn't kicked out of his dormitory, gets an angel named Malaika and is {{Ship Tease}}d with Sayoko, while Sora and Belldandy are forced to leave as their dormitory room is only supposed to have one occupant and end up renting a haunted apartment occupied by Erdgeist, an Earth Spirit Third Class.
* ''[[http://archiveofourown.org/works/6548812 Magic Spells]]'' is set in a world where [[Anime/DigimonAdventure Wizardmon]] is Hikari's partner instead of Gatomon. Also, [[Anime/DigimonAdventure02 Stingmon]] is part of Myotismon's army, and [[Anime/DigimonFrontier Kouichi Kimura]] exists in the same world as the Adventure team.
* ''[[https://www.fanfiction.net/s/84916/1/Angel-Hearts Angel Hearts]]'' is a ''Anime/DigimonAdventure'' fanfic where [[spoiler: Wizardmon manages to survive his HeroicSacrifice thanks to Gennai, and joins the Digidestined in destroying Myotismon]].
* ''[[https://www.fanfiction.net/s/199695/1/KeySeeker KeySeeker]]'' and its [[https://www.fanfiction.net/s/960839/1/KeySeeker-The-Movie sequel]] takes place in a world where [[Anime/DigimonAdventure02 Ken Ichijoji]] ran away to the Digital World as a child, and now serves as the Digital Paladin, guardian of the Digital World.
* ''Fanfic/ACertainUnknownLevel0'': It's a ''LightNovel/ACertainMagicalIndex'' fanfic. While Mr Question Mark does try to incorporate most of the revelations revealed by retconning his story to fit, other elements came too late and had to be left out, such as Shokuhoku knowing Touma before the events of the series; Kamisato Kakeru and his faction along with the Anti-Art Attachment being deliberately ignored.
* ''[[https://www.fanfiction.net/s/4596176/1/A-Clean-Slate A Clean Slate]]'' is a ''Manga/RanmaOneHalf'' fanfic in which Ranma loses the challenge in the Amazon village, and is inducted into the tribe as an Amazon.
* The ''Fanfic/CardinalKing'' series is set in a world where [[Franchise/SailorMoon Mamoru]] is the HenshinHero instead of Usagi.
* ''[[https://www.fanfiction.net/s/7943103/1/Adventures-in-Womanhood Adventures in Womanhood]]'' is a ''Manga/RanmaOneHalf'' fanfic in which the springs of Jusenkyo are permanent. Ranma goes to the Amazons for help adjusting to her body leaving her panda father with the guide. She fights Shampoo for a place in the village and gets training in the amazons ways and fighting. Another elder hates outsiders and plans to kill Ranma but Ranma beats her and her traitorous plans are discovered. Ranma goes home to meet her mother and is accepted. She goes to Furinkan and becomes friends with Akane and quickly agrees to train her.

* The ''[[https://archiveofourown.org/series/1254428 PicoDevimon, Chosen Digimon of Light]]'' series is set in a world where [[Anime/DigimonAdventure DemiDevimon]] is Hikari's partner instead of Gatomon.

* ''Fanfic/{{Other}}'' is a ''Manga/DGrayMan'' Fanfiction in which Allen wakes up in an alternate world where the Noahs and the Exorcists are close allies. In addition, in this world he's only 12 years old...?
* ''Fanfic/HonorTrip'' is an extensive ''Anime/DragonballZ'' fanfiction that chronicles an alternate universe where Cell becomes a hero, & makes amends for his previous deeds.
* ''Fanfic/{{Downfall|Bleach}}'' is a ''Manga/{{Bleach}}'' continuity where Aizen never was the villain, instead [[spoiler: Unohana, you know... TeamMom... is the BigBad. Kyoraku and Ukitake follow her. Nel is Primera. Gin and Ran are Soul Society's resident experts on relationships. Rukia dies.]]
* ''Anime/NeonGenesisEvangelion'':
** ''Fanfic/{{HERZ}}'' is both an AlternateHistory and a Continuation ''Evangelion'' fic. Third Impact was avoided [[spoiler:when Rei chose helping Shinji to get into his giant robot and he hurried to help Asuka,]] and the proper story begins twelve years after, following the main characters' lives as they face new challenges in a changed world.
** ''Manga/Evangelion303'': This fic takes the Evangelion characters and places them in an universe similar to the real world where Second Impact did not happen and there are no [[HumongousMecha giant robots]] or [[{{Robeast}} alien monsters]]. Seele is a secret society that has been manipulating world politics during centuries and has been trying to undermine America’s influence throughout the world. To try to avert Seele's ultimate plan to deal with the USA -named Third Impact-, the USA and Japanese governments put in motion the Black Project Evangelion. As a result of this, Nerv is located in America, the Children are at least twenty-year-old, they pilot war planes instead of Super Robots, and Rei and Kaworu are not Angels.
** ''Fanfic/NeonGenesisEvangelionR'' diverges from the canonical timeline at the end of Episode 24 and beginning of the ''End of Evangelion''. Essentially, Gendo anticipates Seele's attack, decides he's not ready for it, and begins a major reconstruction of Tokyo-3 in order to make himself a public hero that is temporarily untouchable. In retaliation, [[spoiler:Seele builds a bunch of faux Angels for the purpose of attacking Nerv and initiating Third Impact in a more plausibly deniable way, while also recruiting another human-like Angel (ala Kaworu) to help them.]] Also, Shinji gets better. As does Asuka. And Rei. And everyone else. [[spoiler:[[BittersweetEnding Well, almost]]]].
** ''Manga/ReTake'' is perhaps the most popular example amongst the ''Evangelion'' fandom. Shinji has a dream which he realizes prophesies the events of ''End of Evangelion'', and resolves to make better choices in order to avoid the bleak outcome of that story. He ends up [[spoiler:getting engaged to Asuka and fathering her child]]. He also learns that [[spoiler:it is he -- not Kaworu -- who is the final Angel, and that his unborn child is half-Angel because of this]]. While Gendo tries to make Shinji reach his DespairEventHorizon by [[spoiler:seemingly letting Asuka die in an Angel attack]], Shinji manages to not be as selfish as he was in the original story and [[spoiler:defeats the Angels and SEELE without triggering Third Impact]]. He and Asuka [[spoiler:eventually rekindle their romance and live happily ever after]].
** ''Fanfic/AGlassOfWine'' branches off continuity after the battle in the volcano, when Misato points out to Asuka that Shinji also feels phantom pains after each mission.
** ''Fanfic/RolePlayingEvangelion'': The story is set at some point after Shinji telling his father off in the aftermath of the battle against Bardiel, but Shinji is still working for Nerv and living with Misato and Asuka, and there is no mention of other Angel attacks.
** ''Fanfic/LongTimeNoSee'' is set in the future of a timeline where the Third Impact did not happen.
** ''Fanfic/ShinjiTheCasanova'': A different Angel drops by Tokyo-3 and Leliel's attack, setting off a chain of events which ends up with Shinji and Asuka getting together, among other changes.

* ''Manga/{{Naruto}}'':
** ''A Fox in Tokyo'' by Creator/DogheadThirteen is one for ''Manga/{{Naruto}}'', where the main change is that it's set in the author's MegaCrossover Top Dog universe, which includes a modern-day Tokyo where Nerima is a separate country owned and ruled by [[Manga/RanmaOneHalf Soun Tendo]], who is a werewolf. Needs to be seen to be believed.
** ''Fanfic/DejaVuNoJutsu'': Someone with military experience and a like for the Naruto series ends up in Minato and Kushina's generation. Cue events drastically altering the Naruto universe to the point where canon is truly and completely dead[[spoiler: Danzo and Orochimaru are dead long before the "canon" timeline even begins]]. Also, world-building and plot-hole filling abounds.
** ''Fanfic/Team8'': Something (currently a NoodleIncident) happens in Kurenai's past, and when she is tapped to train a genin team, she goes out of her way to request a specific newly-graduated ninja: Naruto Uzumaki. He thus ends up taking Kiba's place on Team 8 (becoming the teammate of Hinata Hyuga and Shino Aburame), while Kiba goes to take his place on Team 7.
** ''Fanfic/DanceOfTheDogGod'' is a ''Anime/{{Naruto}}'' fic where, instead of embracing the rules after his father dies, Kakashi ends up leaving the village, and Team 7 instead ends up training under Obito.
** ''Fanfic/PrincessOfKonoha'' is a ''Manga/{{Naruto}}'' fanfic in which the Hyuuga Clan is far more prominent and influential in Konoha than it is in canon.
** ''Fanfic/SonOfTheSannin'' explores how things could have gone if Jiraiya and Tsunade had chosen to raise Naruto, and stayed around Konoha during those years he grew up. The story then goes on to explore many WhatIf scenarios [[spoiler: such as the Uchiha clan pulling off their planned coup d'etat.]]
** ''[[https://www.fanfiction.net/s/8905731/1/The-Shy-Demon-and-the-Brash-Heir The Shy Demon and the Brash Heir]]'' is a personality swap fic where Naruto became a ShrinkingViolet because he's [[AllOfTheOtherReindeer constantly bullied]] while Hinata became a loud [[ClassClown prankster]] as a way to deal with the stress of being the Hyuuga heir.
** ''Fanfic/WhiteEyes'' is a fic where Neji kills every Hyūga sans Hinata in order to appease the Uchiha from pulling off their coup, as opposed to Itachi killing off members of the Uchiha clan. This results in Hinata to be an avenger while Sasuke doesn't.
** ''Fanfic/WarOfTheBiju'' branches off from the aftermath of Pain’s Invasion, where instead of Danzo becoming the Sixth Hokage candidate, Naruto is the one who receives the position.
* ''Fanfic/YuGiOhRevolutionGathering'': A ''Anime/YuGiOh'' fic where we join a new group of heroes and as one young boy continues his quest to reclaims something he lost.
* ''Anime/CodeGeass'':
** For ''Anime/CodeGeass'', a major point of divergence from the anime's original plot is explored in ''Fanfic/CodeGeassLelouchOfBritannia,'' where the author explores the WhatIf scenario where Lelouch is ''not'' banished from the court, and grows up in Pendragon. The answer? Quite a bit, but with some interesting parallels to the original timeline.
** The ''Franchise/CodeGeass'' fic ''[[http://archiveofourown.org/works/334086 Mosaic]]'' takes place in a world where Britannia prefers to expand its power and influence through [[AltarDiplomacy marriage]] rather than conquest, Suzaku is TheEmperor of Japan, and China made a failed attempt to seize control of the island nation.
** ''Fanfic/OfMonstersAndMen'' is a ''Code Geass'' fanfic where Nunnally was one of the hostages in episode 8. This allows her to reunite with Euphemia earlier than in canon.
* ''Anime/{{Pokemon}}'':
** ''Fanfic/TheRoadYouChoose'' deviates from the ''Pokémon'' anime canon during the movie ''The Mystery of Mew''. The author adds in elements from both the games and the ''Adventures'' manga and meshes them together into her own version of past events, as well as playing a part in future adverts as well.
** ''Fanfic/PokemonTheGreatAdventure'' by Elia41. By a dark and stormy night, young Ash meets a wounded man. Five years later, the two travel across Kanto to challenge the Leagues. Awesomeness ensues.
** In ''Fanfic/{{Symbiosis}}'', Ash's parents are murdered by a mysterious organization at young age. With the help of his father's Mareep, Ash escapes into Viridian Forest and is raised a wild Weedle.
** ''Fanfic/PokemonResetBloodlines'' has a PeggySue premise, with Ash being sent back to the past to [[SetRightWhatOnceWentWrong prevent the collapse of the reality]], while still retaining his experience and memories. However, the transition creates a completely new timeline, and once the story gets going, events begin to play in a ''very'' different way to the canon anime.
** ''Fanfic/TheRoadToBeAPokemonMaster'' is a rewrite of the anime in which Serena moved to Pallet Town several years before the start of the series, and she and Ash begin their Pokemon journey together. It does feature other changes unrelated to this one, most of them being bringing elements from the games the anime [[AdaptedOut left out]].
** ''Fanfic/ANewChanceSeries'' is a ''Anime/{{Pokemon}}'' fanfic where Latios, with Ash's help, survives the events of the fifth movie. Out of gratitude, he and his sister Latias join his team, first in the final part of Johto, and then to Hoenn.
** ''Fanfic/{{Essence}}'' is an AU where Ash wakes up early and gets a Growlithe starter.
** ''Fanfic/ChosenOnesAdventureWithLegendaries'' seems to be a Pokemon anime fic until the end of chapter 3 when Ash gets a Rainbow Wing and suddenly it's a mashup of the anime and all the movies, even those in an alternate continuity.
* A ''Anime/YuGiOh'' fanfic called ''Fanfic/SonOfApophis''. All the character's Yamis become older brothers, with the exception of Bakura, who's an older cousin that [[spoiler:is secretly a half-brother]]. Card games still exist, and it's implied that Yami is still the champion of them, but the tournaments seem to have never taken place. Yami Marik is no where near as psychotic or violent as he is in the actual manga (though he used to be, years ago) and Marik was crippled by his father.
* ''Fanfic/ThePrincessAndTheDragon'' is another ''Anime/YuGiOh'' fic, set in a fantasy universe. Mai is a princess. Yugi is a wizard. Blue Eyes White Dragons are real and Kaiba is the master of them. The Millennium Items still exist (although they are called Shadow Items collectively), and the yamis can all take solid forms. The list goes on.
* ''Manga/SoulEater'':
** It takes place in a new cyberpunk/gothic setting, but ''Manga/SoulEater'' has an AU by Ryo Hoshi called ''Fanfic/ShadowsOnTheWalls'', which has a very strange mix of People In Jars, Lotus Eater Machine, and features some familiar faces traveling as a band...and has the Cargo Ship of Soul Eater Evans and booze. Oh, right, and Maka is a prostitute and Noah [[MemeticMolester does what he does best.]]
** Another one for ''Manga/SoulEater'' would be ''Fanfic/ASoulsSongbook'', which is a result of a single WhatIf involving a switch in who won a battle nearly a thousand years before the start of the canon that ends up turning it into a CrapsackWorld run by the BigBad of the canon, with, among other things, a rare example of CrystalDragonJesus sharing a world with Real Jesus...and the EldritchAbomination cult.
* ''Manga/DeathNote'':
** ''Fanfic/GeniusIsACurse'', a ''Manga/DeathNote'' DarkFic, where Ryuk never drops his Death Note, and Light never becomes Kira, and thus has nothing to alleviate his sheer boredom with. Deals with clinical depression.
** By the same author as ''Genius is a Curse'', a more extreme example of AU. [[http://www.fanfiction.net/s/4382737/1/ It's Just A Game]]. The page description: "It's [[TwentyMinutesIntoTheFuture 2016]] & Light is bored to death. Ryuk offers him the Death Note, a program that lets him wreak havoc anonymously in a virtual world. L pursues this Kira, but when real people start dying, the line between fantasy and reality blurs beyond recognition." L works for Wammy House, the software company making the game, and Ryuk is a disillusioned game programmer they fired. Seems to toy with YourMindMakesItReal.
** In ''Fanfic/ASubtleKind'' is a fic where Misa and Matt's roles in the ''Manga/DeathNote'' universe are swapped.
* ''Anime/{{Nightwalker}}'': ''[[http://www.fanfiction.net/s/1594758/1/STRANGE_PATHS STRANGE PATHS]]'' basically retells the anime story. The only differences are that [[GirlFriday Riho]] is a [[OlderThanTheyLook 140 year old]] vampire and [[VampireDetective Shido]] starts out as an ordinary human detective.

* ''Fanfic/FrozenMoonlight'' is a ''Manga/RurouniKenshin'' fanfiction where the main characters are modern day high school students.
* ''Fanfic/AlwaysAdvancing'' has Yukari Akiyama, the loader of [[Characters/GirlsUndPanzerOaraiAcademyAnglerfishTeam Oarai's Panzer IV]] in ''Anime/GirlsUndPanzer'', wake up in an alternate timeline where her school was never was able to revive its Sensha-do program and subsequently shut down. The story follows her attempting to [[Main/PuttingTheBandBackTogether locate where her old Oarai comrades are]] while being part of the Sensha-do team at her new school, Saunders.