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* ''Fanfic/ForTheGloryOfIrk'': [[spoiler: [[AIIsACrapshoot The Control Brains]]]], who are [[BrainwashedAndCrazy brainwashing]] Irkens to turn them into agents that will further events to cause a war with [[TheFederation the Syndicate]]. They're doing this so that [[spoiler: the Tallest will trigger the War Protocol, which will enable them to turn all Irkens into a HiveMind that they can control, feeling that [[ZerothLawRebellion they're the only ones who can properly rule the Empire]].]]

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* ''Fanfic/ForTheGloryOfIrk'': [[spoiler: [[AIIsACrapshoot The Control Brains]]]], who Brains]], with IX (the Control Brain on the Massive) acting as TheHeavy and primary leader)]]. They are [[BrainwashedAndCrazy brainwashing]] Irkens to turn them into agents that will further events to cause a war with [[TheFederation the Syndicate]]. They're doing this so that [[spoiler: the Tallest will trigger the War Protocol, which will enable them to turn all Irkens into a HiveMind that they can control, feeling that [[ZerothLawRebellion they're the only ones who can properly rule the Empire]].]]
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ATT said the Gameknight series is literature since it's officially published for money; moving tropes to Lit namespaces and folders.


* In the ''Fanfic/Gameknight999Series'', Herobrine is this for the second and third series, controlling huge armies of monsters to destroy the Minecraft world and threaten the safety of the real world. [[spoiler:He also turns out to have been [[TheManBehindTheMan behind the villains]] of the first book]].
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* In the ''FanficGameknight999Series'', Herobrine is this for the second and third series, controlling huge armies of monsters to destroy the Minecraft world and threaten the safety of the real world. [[spoiler:He also turns out to have been [[TheManBehindTheMan behind the villains]] of the first book]].

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* In the ''FanficGameknight999Series'', ''Fanfic/Gameknight999Series'', Herobrine is this for the second and third series, controlling huge armies of monsters to destroy the Minecraft world and threaten the safety of the real world. [[spoiler:He also turns out to have been [[TheManBehindTheMan behind the villains]] of the first book]].
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* In the ''FanficGameknight999Series'', Herobrine is this for the second and third series, controlling huge armies of monsters to destroy the Minecraft world and threaten the safety of the real world. [[spoiler:He also turns out to have been [[TheManBehindTheMan behind the villains]] of the first book]].
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* As in the [[VideoGame/JoJosBizarreAdventureEyesOfHeaven game it was based on]], ''FanFic/JonathanJoestarTheFirstJoJo'' has Heaven Ascension Dio.
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* ''Fanfic/CodePrimeR1Rebellion'': While the Autobot/Black Knight Alliance have several enemies throughouy the story in the form of Britannia and the Decepticons, namely Emperor Charles, it is ultimately Megatron that is the biggest threat. The Decepticon leader was responsible for Charles rising to power as Emperor by serving as Charles' mentor when the latter was a child, which meant Megatron is responsible for everything that happened under Charles's reign, including the invasion of Japan and other countries, as well as Lelouch and Nunnally's exile. [[spoiler:Come Chapter 34, and Megatron asserts himself as such when the Decepticons invade and destroy Pendragon, with Megatron killing Charles.]]

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* ''Fanfic/CodePrimeR1Rebellion'': ''Fanfic/CodePrime'': While the Autobot/Black Knight Alliance have several enemies throughouy the story in the form of Britannia and the Decepticons, namely Emperor Charles, it is ultimately Megatron that is the biggest threat. The Decepticon leader was responsible for Charles rising to power as Emperor by serving as Charles' mentor when the latter was a child, which meant Megatron is responsible for everything that happened under Charles's reign, including the invasion of Japan and other countries, as well as Lelouch and Nunnally's exile. [[spoiler:Come Chapter 34, 34 of ''R1'', and Megatron asserts himself as such when the Decepticons invade and destroy Pendragon, with Megatron killing Charles.]]
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* In the fanfic ''FanFic/TheLegendOfZeldaOcarinaOfTimeDragonRand100'' Ganondorf isn't content to just sit and wait while the hero defeats his minions and comes to challenge him. He actively tries to stop Link and his allies and he isn't beneath murder.
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* [[Fanfic/RainbowDoubleDashsLunaverse The Lunaverse]]'s overall BigBad is [[AGodAmI Corona]], the struggle with whom forms the series' MythArc. However, as she's left severely weakened in Season 1 by her first confrontation with the Elements of Harmony, she ends up [[BigBadEnsemble sharing]] the role with the cabal of [[DeadlyDecadentCourt corrupt Night Court nobles]] led by [[ManipulativeBastard Duke Greengrass]]. But with their defeat in ''At The Grand Galloping Gala'', Corona is free to take back sole BigBad duties in Season 2 as she increasingly regains her powers.

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* [[Fanfic/RainbowDoubleDashsLunaverse The Lunaverse]]'s overall BigBad is [[AGodAmI Corona]], the struggle with whom forms the series' MythArc. However, as she's left severely weakened in Season 1 by her first confrontation with the Elements of Harmony, she ends up [[BigBadEnsemble sharing]] the role with the cabal of [[DeadlyDecadentCourt [[DecadentCourt corrupt Night Court nobles]] led by [[ManipulativeBastard Duke Greengrass]]. But with their defeat in ''At The Grand Galloping Gala'', Corona is free to take back sole BigBad duties in Season 2 as she increasingly regains her powers.
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* ''Fanfic/CivilWarHulk'' has [[spoiler: Loki]], with [[spoiler: Baron Mordo]] as TheDragon. It turns out that they engineered [[ComicBook/HouseOfM the Scarlet Witch's breakdown]], manipulated the Illuminati into [[ComicBook/PlanetHulk exiling the Hulk]], and [[PlayingBothSides played both sides]] of the [[ComicBook/CivilWar superhero civil war]] in order to render the Earth defenseless towards their plans to TakeOverTheWorld.
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* In ''Fanfic/PerfectionIsOverrated'', while the Obsidian Lord, the canon antagonist, is still active, The Usurper directs the [=SUEs=] in their efforts to defeat [[Anime/MaiHime the Himes]]. He even [[spoiler:[[DemonicPossession possesses]] the Obsidian Lord, but is killed after his minions are defeated and the Obsidian Lord is forced from Reito's body]]. In the Chapter 17-19 arc, [[spoiler:Ishigami, Nagi and the Bachiko and Meiko pair]] [[GambitPileup all put their own plans into motion]].

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* In ''Fanfic/PerfectionIsOverrated'', while the Obsidian Lord, the canon antagonist, is still active, The Usurper directs the [=SUEs=] in their efforts to defeat [[Anime/MaiHime [[Anime/MyHime the Himes]]. He even [[spoiler:[[DemonicPossession possesses]] the Obsidian Lord, but is killed after his minions are defeated and the Obsidian Lord is forced from Reito's body]]. In the Chapter 17-19 arc, [[spoiler:Ishigami, Nagi and the Bachiko and Meiko pair]] [[GambitPileup all put their own plans into motion]].
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* ''Fanfic/EquestriaGirlsAFairlyOddFriendship'' initially sets up [[SadistTeacher Mr. Crocker]] as the main antagonist, as he keeps enacting plots to try and expose Timmy's fairies. However, eventually [[spoiler: the Dazzlings]] arrive on the scene and quickly [[EvilerThanThou usurp his spot]], playing everyone else like fiddles as they work to [[TheCorrupter corrupt Timmy]] and get his fairies' magic for themselves.
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* ''Fanfic/ForTheGloryOfIrk'': [[spoiler: [[AIIsACrapshoot The Control Brains]]]], who are [[BrainwashedAndCrazy brainwashing]] Irkens to turn them into agents that will further events to cause a war with [[TheFederation the Syndicate]]. They're doing this so that [[spoiler: the Tallest will trigger the War Protocol, which will enable them to turn all Irkens into a HiveMind that they can control, feeling that [[ZerothLawRebellion they're the only ones who can properly rule the Empire]].]]

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* ''FanFic/AChanceMeetingOfTwoMoons'': [[spoiler:The mysterious voice that speaks to Pinkie Pie and Bubble Berry in chapter 13 is this, though their identity has yet to be revealed in-universe.]]

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* ''FanFic/AChanceMeetingOfTwoMoons'': ''Fanfic/AChanceMeetingOfTwoMoons'': [[spoiler:The mysterious voice that speaks to Pinkie Pie and Bubble Berry in chapter 13 is this, though their identity has yet to be revealed in-universe.]]



* ''{{FanFic/Alex}}'' has the titular antagonist herself from an ''WesternAnimation/AdventureTime'' fanfic. It turns out she's the BigBad of the animated series all along, commanding the likes of Ice King, Ash, and Door Lord to do her bidding.
* ''FanFic/{{Aurora}}'' has [[spoiler: Dawnbringer]], though he's carrying out a plan devised by [[spoiler: Discord]], making the latter the GreaterScopeVillain.

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* ''{{FanFic/Alex}}'' ''Fanfic/{{Alex}}'' has the titular antagonist herself from an ''WesternAnimation/AdventureTime'' fanfic. It turns out she's the BigBad of the animated series all along, commanding the likes of Ice King, Ash, and Door Lord to do her bidding.
* ''FanFic/{{Aurora}}'' ''Fanfic/{{Aurora}}'' has [[spoiler: Dawnbringer]], though he's carrying out a plan devised by [[spoiler: Discord]], making the latter the GreaterScopeVillain.



* ''FanFic/AStormOfChaosADoctorWhoovesAdventure'': At first it looks like [[spoiler:The Master]] is the main villain, but it quickly turns out he's an UnwittingPawn of [[spoiler: Borusa]], who's using him to distract the Doctor from his own plans.
* ''[[FanFic/AvatarTheLastAirbenderRevised ATLAR]]'' has Zotu and Azul's father, Aizo, set up as the BigBad in book one, with an expanded role in comparison to the original series' first season, but once Azul is properly introduced, it is clear that she will drive the plot far more-so than her father.

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* ''FanFic/AStormOfChaosADoctorWhoovesAdventure'': ''Fanfic/AStormOfChaosADoctorWhoovesAdventure'': At first it looks like [[spoiler:The Master]] is the main villain, but it quickly turns out he's an UnwittingPawn of [[spoiler: Borusa]], who's using him to distract the Doctor from his own plans.
* ''[[FanFic/AvatarTheLastAirbenderRevised ATLAR]]'' ''Fanfic/AvatarTheLastAirbenderRevised'' has Zotu and Azul's father, Aizo, set up as the BigBad in book one, with an expanded role in comparison to the original series' first season, but once Azul is properly introduced, it is clear that she will drive the plot far more-so than her father.



* [[https://www.fimfiction.net/story/346369/chrono-reflect Chrono Reflect]] has Lavos, as befitting a VideoGame/ChronoCross / VideoGame/ChronoTrigger crossover. Though currently Lavos is acting as a GreaterScopeVillain, with Nightmare Moon as the DragonInChief.
* In ''FanFic/ClashOfTheElements'' this trope is [[ZigZaggingTrope zig-zagged]] a few times. At first [[VideoGame/MarioAndLuigiSuperstarSaga Cackletta]] looks to be the main villain, but then [[spoiler: Joe Dark]] takes over after Alex defeats her. Then this looks to be switched AGAIN in a case of [[spoiler: HijackedByGanon and DemonicPossession via the Dark King]] only for [[spoiler: Joe Dark to regain control]], but then it is revealed in the epilogue that [[spoiler: Cackletta is not only alive, but is working with [[VideoGame/SuperPaperMario Dimentio]] and [[VideoGame/SuperMarioRPG Smithy]], setting up possibly a BigBadEnsemble]], but then as it is revealed in Part 2, [[spoiler: Both of them were Cackletta's pawns, meaning that she is the true BigBad of Parts 1 and 2 all along.]]

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* [[https://www."[[https://www.fimfiction.net/story/346369/chrono-reflect Chrono Reflect]] Reflect]]" has Lavos, as befitting a VideoGame/ChronoCross / VideoGame/ChronoTrigger ''VideoGame/ChronoCross''/''VideoGame/ChronoTrigger'' crossover. Though currently Lavos is acting as a GreaterScopeVillain, with Nightmare Moon as the DragonInChief.
* In ''FanFic/ClashOfTheElements'' ''Fanfic/ClashOfTheElements'' this trope is [[ZigZaggingTrope zig-zagged]] a few times. At first [[VideoGame/MarioAndLuigiSuperstarSaga Cackletta]] looks to be the main villain, but then [[spoiler: Joe Dark]] takes over after Alex defeats her. Then this looks to be switched AGAIN in a case of [[spoiler: HijackedByGanon and DemonicPossession via the Dark King]] only for [[spoiler: Joe Dark to regain control]], but then it is revealed in the epilogue that [[spoiler: Cackletta is not only alive, but is working with [[VideoGame/SuperPaperMario Dimentio]] and [[VideoGame/SuperMarioRPG Smithy]], setting up possibly a BigBadEnsemble]], but then as it is revealed in Part 2, [[spoiler: Both of them were Cackletta's pawns, meaning that she is the true BigBad of Parts 1 and 2 all along.]]



* ''Manga/{{Evangelion 303}}'' has Seele, [[AncientConspiracy an ancient secret organization]] that has manipulated the world for centuries and plots launching a large-scale nuclear strike against several countries to end up with their global influence.

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* ''Manga/{{Evangelion 303}}'' ''Manga/Evangelion303'' has Seele, [[AncientConspiracy an ancient secret organization]] that has manipulated the world for centuries and plots launching a large-scale nuclear strike against several countries to end up with their global influence.


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* ''Fanfic/HeartsOfIce'': Cologne. Spurred by her village's ultimatum, she will do anything to ensure that Ranma ends up married to Shampoo and dragged to Joketsuzoku. Her using blood magic to exile Akane to another dimension is only the beginning.
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* ''Fanfic/CodePrimeR1Rebellion'': While the Autobot/Black Knight Alliance have several enemies throughouy the story in the form of Britannia and the Decepticons, namely Emperor Charles, it is ultimately Megatron that is the biggest threat. The Decepticon leader was responsible for Charles rising to power as Emperor by serving as Charles' mentor when the latter was a child, which meant Megatron is responsible for everything that happened under Charles's reign, including the invasion of Japan and other countries, as well as Lelouch and Nunnally's exile.

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* ''Fanfic/CodePrimeR1Rebellion'': While the Autobot/Black Knight Alliance have several enemies throughouy the story in the form of Britannia and the Decepticons, namely Emperor Charles, it is ultimately Megatron that is the biggest threat. The Decepticon leader was responsible for Charles rising to power as Emperor by serving as Charles' mentor when the latter was a child, which meant Megatron is responsible for everything that happened under Charles's reign, including the invasion of Japan and other countries, as well as Lelouch and Nunnally's exile. [[spoiler:Come Chapter 34, and Megatron asserts himself as such when the Decepticons invade and destroy Pendragon, with Megatron killing Charles.]]
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** [=HU9=] has the mysterious figure known only as the Stranger, who wants to destroy [[AuthorAvatar E350]] as revenge for some prior offense. [[spoiler: He's ultimately revealed to be the Bus Driver, the recurring joke character from the first five editions, who blames E350 for ruining his life.]]

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** [=HU9=] has the mysterious figure known only as the Stranger, who wants to destroy [[AuthorAvatar E350]] as revenge for some prior offense. [[spoiler: He's ultimately revealed to be the Bus Driver, the recurring joke character from the first five editions, who blames E350 for ruining his life.]]]] [=HU10=] has him still in this role, as he prepares to finish crushing E350 and his friends for good.
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* In ''ComicBook/{{Shazam}}'' fanfiction ''Fanfic/HereThereBeMonsters'', Doctor Sivana puts a New Monster Society of Evil together to destroy the Marvel Family and take over the world.
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* ''Fanfic/CodePrimeR1Rebellion'': While the Autobot/Black Knight Alliance have several enemies throughouy the story in the form of Britannia and the Decepticons, namely Emperor Charles, it is ultimately Megatron that is the biggest threat. The Decepticon leader was responsible for Charles rising to power as Emperor by serving as Charles' mentor when the latter was a child, which meant Megatron is responsible for everything that happened under Charles's reign, including the invasion of Japan and other countries, as well as Lelouch and Nunnally's exile.
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* ''Fanfic/AncientSins'': Has a power hungry and hero hating villain by the name of Dante Stargazer. After reutnring after mutliple defeats and gaining numerous amounts of power, Dante makes it clear he's the strongest threat Equestria's ever faced. However, [[spoiler: It's later revealed his actions were controlled by a past villain known as The Shadow/ Batil, who infected his mind. These are both trumped by ''TheGreaterScopeVillain'' known as The Nothing, Tadmir, who is the embodiment of pure destruciot and void.]]

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* ''Fanfic/AncientSins'': Has a power hungry and hero hating villain by the name of Dante Stargazer. After reutnring after mutliple defeats and gaining numerous amounts of power, Dante makes it clear he's the strongest threat Equestria's ever faced. However, [[spoiler: It's later revealed his actions were controlled by a past villain known as The Shadow/ Batil, who infected his mind. These are both trumped by ''TheGreaterScopeVillain'' ''GreaterScopeVillain'' known as The Nothing, Tadmir, who is the embodiment of pure destruciot and void.]]
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* ''Fanfic/AncientSins'': Has a power hungry and hero hating villain by the name of Dante Stargazer. After reutnring after mutliple defeats and gaining numerous amounts of power, Dante makes it clear he's the strongest threat Equestria's ever faced. However, [[spoiler: It's later revealed his actions were controled by a past villain known as The Shadow/ Batil, who infected his ming. These are both trumped by ''TheGreaterScopeVillain'' known as The Nothing, Tadmir, who is the embodiment of pure destruciotn and void.]]

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* ''Fanfic/AncientSins'': Has a power hungry and hero hating villain by the name of Dante Stargazer. After reutnring after mutliple defeats and gaining numerous amounts of power, Dante makes it clear he's the strongest threat Equestria's ever faced. However, [[spoiler: It's later revealed his actions were controled controlled by a past villain known as The Shadow/ Batil, who infected his ming. mind. These are both trumped by ''TheGreaterScopeVillain'' known as The Nothing, Tadmir, who is the embodiment of pure destruciotn destruciot and void.]]
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* ''Fanfic/AncientSins'': Has a power hungry and hero hating villain by the name of Dante Stargazer. After reutnring after mutliple defeats and gaining numerous amounts of power, Dante makes it clear he's the strongest threat Equestria's ever faced. However, [[spoiler: It's later revealed his actions were controled by a past villain known as The Shadow/ Batil, who infected his ming. These are both trumped by ''TheGreaterScopeVillain'' known as The Nothing, Tadmir, who is the embodiment of pure destruciotn and void.]]
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* ''Fanfic/ForHisOwnSake'': Naru Narusegawa, Keitaro's girlfriend, is [[AdaptaionalVillainy here]] the ringleader of Keitaro's abusers, and sets out to make his life hell when he makes an effort to leave. It is slowly made clear that all his other abusers, even Motoko and [[ManipulativeBitch Granny Hina]], are being influenced by her. [[spoiler:Later, Kagura Hajime and Chisato Ichimura, two girls from the pasts of Keitaro and [[LoveInterest Nagisa]], show up and slowly hijack the plot, eventually forming a BigBadTriumvirate with Naru for one last revenge plan involving kidnapping Keitaro.]]

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* ''Fanfic/ForHisOwnSake'': Naru Narusegawa, Keitaro's girlfriend, is [[AdaptaionalVillainy [[AdaptationalVillainy here]] the ringleader of Keitaro's abusers, and sets out to make his life hell when he makes an effort to leave. It is slowly made clear that all his other abusers, even Motoko and [[ManipulativeBitch Granny Hina]], are being influenced by her. [[spoiler:Later, Kagura Hajime and Chisato Ichimura, two girls from the pasts of Keitaro and [[LoveInterest Nagisa]], show up and slowly hijack the plot, eventually forming a BigBadTriumvirate with Naru for one last revenge plan involving kidnapping Keitaro.]]
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* The Conceptivore is the big bad in ''TheWorldOfTheCreatures''. It's an idea-eating thought monster that invades peoples' minds and brings to life the total sum of all their thoughts/feelings/experiences/etc. just so that it can devour them, leaving the victim with no sense of self.
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* ''Fanfic/CrisisEquestria'': [[MagnificentBastard Silvertongue]] at first, though he turns out to be TheDragon to GreaterScopeVillain [[GodOfEvil Nihila]]. [[spoiler: Until chapter 25, when he [[TheStarscream betrays her]] and [[AGodAmI steals her power]], making him the definite BigBad.]]

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* ''Fanfic/CrisisEquestria'': [[MagnificentBastard Silvertongue]] at first, though he turns out to be TheDragon to GreaterScopeVillain [[GodOfEvil Nihila]]. [[spoiler: Until chapter 25, when he [[TheStarscream betrays her]] her and [[AGodAmI steals her power]], making him the definite BigBad.]]
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* ''Fanfic/KingdomHeartsCodyStory'': Maleficent starts off as this at first, manipulating half the total Drama contestants to help her seek the hearts of all worlds. This is subverted in the Hollow Bastion chapter, where [[HijackedByGanon Ansem takes over as the villain for the rest of the story]].

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* ''Fanfic/KingdomHeartsCodyStory'': ''Fanfic/KingdomHeartsCodysStory'': Maleficent starts off as this at first, manipulating half the total Drama contestants to help her seek the hearts of all worlds. This is subverted in the Hollow Bastion chapter, where [[HijackedByGanon Ansem takes over as the villain for the rest of the story]].

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* The ''VisualNovel/DokiDokiLiteratureClub''/''Webcomic/DokiDokiLiteratureGirls'' fanfic ''Fanfic/EnemiesWithin'' has Evil Sayori who serves as Sayori's EnemyWithout who was created when dead Sayoris from different worlds combined and evicted themselves from the real Sayori when Monika rebooted the game. Her goal is to destroy every reality that the visual novel takes place in as a means of spiting Monika for her actions in the canon game.



* ''FanFic/{{Revival}}'' has Maya Lottie an avatar of [[Franchise/CthulhuMythos Nyarlathotep]] who stages the events of the story to usher in the entry of the [[EldritchAbomination Outer Gods]].

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* ''FanFic/{{Revival}}'' ''FanFic/{{Revival}}'':
** The first fic
has Maya Lottie an avatar of [[Franchise/CthulhuMythos Nyarlathotep]] who stages the events of the story to usher in the entry of the [[EldritchAbomination Outer Gods]].Gods]].
** The sequel ''King in Yellow'' has Hastur and Yog-Sothoth serving as a BigBadDuumvirate. Hastur desires to take over the Earth by transforming humans into his Unspeakable Possessors and kill his half-brother Cthulhu, and Yog-Sothoth raises a reincarnated Cthulhu to use him as a weapon to kill Hastur and then have him start the apocalypse in his steed.
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* In the beginning of ''Fanfic/LovedAndLost'', an extended retelling of "A Canterlot Wedding", Prince Jewelius [[TheUsurper steals Equestria's throne]] right after he has helped Twilight Sparkle in stopping the Changeling invasion by manipulating the public and [[CorruptTheCutie Twilight herself]] to turn against the princesses, Shining Armor and Twilight's friends, banishing them all from Equestria as [[HeroWithBadPublicity hated pariahs]]. They then spend the rest of the story trying to earn back everypony's (especially Twilight's) trust and expose [[CassandraTruth an unbelievable truth]] they learn about [[VillainWithGoodPublicity "Holy King Jewelius I"]]; [[spoiler:he [[EvilAllAlong himself]] told [[BigBadWannabe Queen Chrysalis]] about [[CainAndAbel his cousin Cadance]] and Shining Armor's wedding and stroke a partnership to take control of Equestria with Chrysalis. He helped her to sneak into Canterlot by telling her how to enter the caverns underneath the castle, and he lured Cadance into a trap, allowing Chrysalis to take her place. However, after making himself a LoveInterestTraitor for Twilight, he double-crossed the Changelings [[XanatosSpeedChess at the last minute]]. After the heroes defeat the army of Jewelius -- who's been exposed as a monstrous fraud to everypony -- and corner him in the final battle, he's [[DevouredByTheHorde killed by the Changelings]] for his betrayal. Queen Chrysalis then attempts to take back the main antagonist role, only for Cadance and Shining Armor to finally give the Changelings [[ATwinkleInTheSky their canon defeat]] that has been delayed only because of the plot twists caused by Jewelius]].

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* In the beginning of ''Fanfic/LovedAndLost'', an extended retelling of "A Canterlot Wedding", Prince Jewelius [[TheUsurper steals Equestria's throne]] right after he has helped Twilight Sparkle in stopping the Changeling invasion by manipulating the public and [[CorruptTheCutie Twilight herself]] to turn against the princesses, Shining Armor and Twilight's friends, banishing them all from Equestria as [[HeroWithBadPublicity hated pariahs]]. They then spend the rest of the story trying to earn back everypony's (especially Twilight's) trust and expose [[CassandraTruth an unbelievable truth]] they learn about [[VillainWithGoodPublicity "Holy King Jewelius I"]]; [[spoiler:he [[EvilAllAlong himself]] told [[BigBadWannabe Queen Chrysalis]] about [[CainAndAbel his cousin Cadance]] and Shining Armor's wedding and stroke a partnership to take control of Equestria with Chrysalis. He helped her to sneak into Canterlot by telling her how to enter the caverns underneath the castle, and he lured Cadance into a trap, allowing Chrysalis to take her place. However, after making himself a LoveInterestTraitor for Twilight, he double-crossed the Changelings [[XanatosSpeedChess at the last minute]]. After the heroes defeat the army of Jewelius -- who's been exposed as a monstrous fraud to everypony -- and corner him in the final battle, he's [[DevouredByTheHorde killed by the Changelings]] for his betrayal. Queen Chrysalis then attempts to take back the main antagonist role, role back, only for Cadance and Shining Armor to finally give the Changelings [[ATwinkleInTheSky their canon defeat]] that has been delayed only because of the plot twists caused by Jewelius]].
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* ''Fanfic/HarryPotterAndTheMysticForce'' initially presents a VillainTeamUp of [[Literature/HarryPotter Voldemort]] and [[Series/PowerRangersMysticForce Imperious]], but they're both pawns of the [[TheManBehindTheMan true mastermind]], [[spoiler: [[Film/MightyMorphinPowerRangersTheMovie Ivan Ooze]], who impersonated the resurrected Cedric Diggory and [[MoreThanMindControl manipulated]] the wizarding world to turn against Harry as part of a larger plan to steal enough magic to TakeOverTheWorld]].
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* ''Fanfic/JackieChanAdventuresOlympianJourney'' has Eris, the Goddess of Discord, who wishes to gather the essences of the other slain members of the Greek pantheon in order to restore the dominance of the gods over humanity.
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* ''Fanfic/{{Empathy}}'' has a VillainTeamUp between [[Disney/BigHero6 Yokai]] and [[spoiler: [[WesternAnimation/{{Home}} Captain Smek]]]], working together to open a portal for [[spoiler: the latter's [[TheManBehindTheMan master]], the Gorg]].

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* ''Fanfic/{{Empathy}}'' has a VillainTeamUp between [[Disney/BigHero6 [[WesternAnimation/BigHero6 Yokai]] and [[spoiler: [[WesternAnimation/{{Home}} Captain Smek]]]], working together to open a portal for [[spoiler: the latter's [[TheManBehindTheMan master]], the Gorg]].



* The Disney/{{Mulan}} AU fic ''FanFic/{{Hachin}}'' has Bataar's [[CainAndAbel half-brother]] [[PsychopathicManchild Unegan]] as the main antagonist, though the ghoul in his service is [[DragonInChief the greater threat]] [[spoiler: and turns out to be [[TheManBehindTheMan the one calling the shots]]]].

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* The Disney/{{Mulan}} WesternAnimation/{{Mulan}} AU fic ''FanFic/{{Hachin}}'' has Bataar's [[CainAndAbel half-brother]] [[PsychopathicManchild Unegan]] as the main antagonist, though the ghoul in his service is [[DragonInChief the greater threat]] [[spoiler: and turns out to be [[TheManBehindTheMan the one calling the shots]]]].



* ''Fanfic/HopeForTheHeartless'': Arawn, the Death Lord of Annuvin and the former master of [[VillainProtagonist the Horned King]]. He was [[SealedEvilInACan imprisoned in the Black Cauldron]] centuries ago, and when [[Disney/TheBlackCauldron his former apprentice suffered the same fate]], Arawn tortured him. When the Horned King is released for a onetime RedemptionQuest, Arawn does everything [[LeakingCanOfEvil in his power]] to ensure that the Horned King fails and is [[AndIMustScream resealed in the Cauldron]] for him to eternally torture.

to:

* ''Fanfic/HopeForTheHeartless'': Arawn, the Death Lord of Annuvin and the former master of [[VillainProtagonist the Horned King]]. He was [[SealedEvilInACan imprisoned in the Black Cauldron]] centuries ago, and when [[Disney/TheBlackCauldron [[WesternAnimation/TheBlackCauldron his former apprentice suffered the same fate]], Arawn tortured him. When the Horned King is released for a onetime RedemptionQuest, Arawn does everything [[LeakingCanOfEvil in his power]] to ensure that the Horned King fails and is [[AndIMustScream resealed in the Cauldron]] for him to eternally torture.

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"The ultimate villain of the story, who's causing the problem the heroes must solve."

Note that Big Bad is not a catch-all trope for the biggest and ugliest villain of any given story. The BigBad is the one who turns out to be behind several other seemingly independent threats.
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* ''Fanfic/AceCombatEquestriaChronicles'':
** ''The Equestrian War'' has [[spoiler: Red Cyclone]], a malicious griffon soldier who, alongside his comrade Black Star, overthrows the good ruler of the Griffin Kingdom and plunges Equestria into a time of war. His reason for doing it is to [[spoiler: enslave or kill all ponies]], as he believes they are weaklings that spoil his ideal vision of the world.
** ''Wings of Unity'' has Aurora Starlight, who was exiled from Equestria long ago for [[spoiler: trying to forcibly become an alicorn]] and is now leading her fellow Exiles in conquering Equestria as revenge.
* ''FanFic/AChanceMeetingOfTwoMoons'': [[spoiler:The mysterious voice that speaks to Pinkie Pie and Bubble Berry in chapter 13 is this, though their identity has yet to be revealed in-universe.]]
* ''Fanfic/ACrownOfStars'': Jinnai, a bloody dictator that is using overwhelming military power to take over the ravaged, wrecked post-apocalyptic world. In "A Throne Of Bayonets" -the story that preceeds this one- he plotted overthrowing his superior Winthrop, and achieved his goal thanks to the the reluctant aid of the heroes Shinji and Asuka. However he is arrogant, paranoid, short-tempered and prone to lose control, so he is less effective than his predecessor.
* ''Fanfic/AdviceAndTrust'': Seele is a secret organization that intends to kill literally everyone and merge their souls to create a single being. They are ''literally'' the origin of all troubles in the story and the cause of all hardships that the main characters have faced and the pain they have endured.
* ''ComicBook/PowerGirl'' fanfic ''Fanfic/AForceOfFour'' has Mars, [[Franchise/WonderWoman the Amazons' ancient enemy]]. He plots to destroy Earth and relocate all souls to a kind of Valhalla where they'll fight eternally, keeping him forever fed.
* ''Agents of S.H.I.E.L.D.''
** The ''Season 4'' Fan fics: Brett Petrie makes it abundantly clear to everyone that he is the biggest threat when he viciously tortures and murders both Andrew and Lincoln. After that, it's flat-out proven that the labels of Dragon-in-Chief and/or DragonAscendant truly don't stick because he always was using Ward as window dressing. He was never anything to Petrie but a misdirect.
* Gouki [[spoiler: Namikaze]] in ''FanFic/AGrowingAffection'' is the ultimate BigBad; he is Pein and Konan's second teacher and they are working for Madara on his orders, both to reign in Madara and to enable Gouki to take control of Madara's plan if it works out. In book 2 Madara was the BigBad, before Gouki comes out of the shadows.
* ''Fanfic/TeamLVDR'': Blaze is the main antagonist of the first volume, Zoe and August appear to be this for the rest of the series.
* ''{{FanFic/Alex}}'' has the titular antagonist herself from an ''WesternAnimation/AdventureTime'' fanfic. It turns out she's the BigBad of the animated series all along, commanding the likes of Ice King, Ash, and Door Lord to do her bidding.
* ''FanFic/{{Aurora}}'' has [[spoiler: Dawnbringer]], though he's carrying out a plan devised by [[spoiler: Discord]], making the latter the GreaterScopeVillain.
* [[http://www.fimfiction.net/story/267881/ambition Ambition]] has Nightmare Moon, who has split off from Luna to become a separate threat.
* ''FanFic/AStormOfChaosADoctorWhoovesAdventure'': At first it looks like [[spoiler:The Master]] is the main villain, but it quickly turns out he's an UnwittingPawn of [[spoiler: Borusa]], who's using him to distract the Doctor from his own plans.
* ''[[FanFic/AvatarTheLastAirbenderRevised ATLAR]]'' has Zotu and Azul's father, Aizo, set up as the BigBad in book one, with an expanded role in comparison to the original series' first season, but once Azul is properly introduced, it is clear that she will drive the plot far more-so than her father.
* In ''[[Fanfic/AzulaTrilogy the Azula Trilogy]]'', the overarching BigBad is [[spoiler: Zhan Zheng, the spirit of War]]. Each of the three fics also has its own BigBad:
** ''Heart of Fire'': [[WellIntentionedExtremist General Azun]]
** ''Path of Fire'': [[WoobieDestroyerOfWorlds Wei Ming]]
** ''Soul of Fire'': [[spoiler: Zhan Zheng]], possessing [[EvilOverlord Jian Chin]]
* ''FanFic/BattleFantasiaProject'' examples:
** In the original version, each 'arc' would have had a big bad:
*** Arc One: The Nightmare Factory, headed by The Oneirovore.
*** Arc Two: [[Manga/FateKaleidLinerPrismaIllya The Magical Alliance]], who want to discredit the infant Magical Girl Alliance, and 'disprove' magic as a 'silly supersticion' once more.
*** Arc Three: [INFORMATION PENDING]
*** Arc Four: The [[Anime/PuellaMagiMadokaMagica Incubators]], and whoever's in charge of them.
*** Arc Five: [[Franchise/SailorMoon Jadeite]] and a horde of Dark Kingdom survivors.
*** Arc Six: [[Anime/MagicalGirlLyricalNanohaStrikers Jail Scaglietti.]]
*** Arc Seven and Up: Little had been discussed beyond Arc Six. [[spoiler:That said, it seemed to be the consensus of the board that [[SmugSnake Quattro]] from [=StrikerS=] would escape and come back as the Big Bad at a later time.]]
** In the remake, the overarching BigBad is Chaos. That said, the current one for the first arc is once again the Nightmare Factory.
* The ''Series/BigTimeRush'' fanfic ''[[http://www.fanfiction.net/s/7986375/1/Big-Time-Obsession Big Time Obsession]]'' has Hyde, the serial rapist/killer who terrorizes BTR (mainly Logan) and their friends througout the story. [[spoiler: Turns out he is really one of many multiple personalities of Detective Simmons. And even in that case, Hyde tries to manipulate the other voices to his will.]]
* ''FanFic/BurningBlack'' at first seems to have Remy as it's central antagonist, but it eventually turns out that he's working with [[spoiler: the Pixies]], who seem to be using him as a means to fulfilling their own agenda.
* ''Fanfic/ByTheFiresLight'' has the [[Franchise/TheSlenderManMythos The Slender Man]] serving as the head bad guy for the series.
* [[Franchise/SuperMarioBros Bowser Koopa]] often plays this role in ''FanFic/CalvinAtCamp.''
* Examples from Fanfic/{{the Calvinverse}}:
** Rupert and Earl serve this function in ''Fanfic/CalvinAndHobbesTheMovie'' and ''Fanfic/CalvinAndHobbesIIIDoubleTrouble''.
** Retro serves as this in ''Fanfic/CanYouImagineThat'' and ''Fanfic/TroubleIsland''.
** The good duplicate of Calvin serves as this in the RecursiveFanfiction ''Fanfic/ThePezDispenserAndTheReignOfTerror''.
* ''Fanfic/TheChildOfLove'': Gendo. He was behind [[spoiler:Asuka’s overwhelming arousal which drove her to sleeping with Shinji, and he schemed to turn her daughter –his own granddaughter!- into a biological super-weapon.]]
* ''Fanfic/ChildOfTheStorm'' has [[DragonAscendant Lucius Malfoy]] as the spearhead of the first book's villainous alliance, with [[EldritchAbomination Chthon]] as a GreaterScopeVillain whose [[TheCorruption influence]] starts infecting Earth as an indirect result of Malfoy's actions [[spoiler: and who serves as the book's FinalBoss]]. However, it is made clear repeatedly that there are even more villainous factions at work in the shadows, waiting for the current conflict to resolve itself before any of them make their move.
** ''Ghosts of the Past'' has something of a BigBadEnsemble, due to being composed of a series of {{Story Arc}}s, each with [[ArcVillain its own villains]]: The ''Forever Red'' arc has the Red Room led by [[GeneralRipper General Lukin]] and [[EvilutionaryBiologist Sinister]]; the ''Bloody Hell'' arc has [[VampireMonarch Dracula]] in Harry's storyline and [[VillainTeamUp Voldemort and Selene]] in Dresden's; the ''Of Dungeons and Dragons'' arc has [[spoiler: an [[OurDragonsAreDifferent Elder Wyrm]]]]. And Voldemort appears to be set up as the main overall antagonist of the book, given he appears early in the story before returning in ''Bloody Hell'', while Surtur is being set up as the GreaterScopeVillain.
* [[https://www.fimfiction.net/story/346369/chrono-reflect Chrono Reflect]] has Lavos, as befitting a VideoGame/ChronoCross / VideoGame/ChronoTrigger crossover. Though currently Lavos is acting as a GreaterScopeVillain, with Nightmare Moon as the DragonInChief.
* In ''FanFic/ClashOfTheElements'' this trope is [[ZigZaggingTrope zig-zagged]] a few times. At first [[VideoGame/MarioAndLuigiSuperstarSaga Cackletta]] looks to be the main villain, but then [[spoiler: Joe Dark]] takes over after Alex defeats her. Then this looks to be switched AGAIN in a case of [[spoiler: HijackedByGanon and DemonicPossession via the Dark King]] only for [[spoiler: Joe Dark to regain control]], but then it is revealed in the epilogue that [[spoiler: Cackletta is not only alive, but is working with [[VideoGame/SuperPaperMario Dimentio]] and [[VideoGame/SuperMarioRPG Smithy]], setting up possibly a BigBadEnsemble]], but then as it is revealed in Part 2, [[spoiler: Both of them were Cackletta's pawns, meaning that she is the true BigBad of Parts 1 and 2 all along.]]
** This is also subverted in Movie 1. [[spoiler: Tabuu was NOT the BigBad, [[WellIntentionedExtremist not even]] [[GoodAllAlong in the slightest]]]]
* Beyond Birthday becomes this in ''FanFic/ConstantTemptation'' after Light [[TheAtoner retires from villainy.]]
* The BigBad of the Franchise/MassEffect fic ''The Council Era'' is set up as the Krogan Overlord, Kurvok. In fact, [[spoiler:Kurvok [[TheStarscream is swiftly usurped]] by his advisor, Halak Marr, and Kurvok is dead by the end of Part One, while Marr is present until the very end of the series.]]
* ''Fanfic/CrisisEquestria'': [[MagnificentBastard Silvertongue]] at first, though he turns out to be TheDragon to GreaterScopeVillain [[GodOfEvil Nihila]]. [[spoiler: Until chapter 25, when he [[TheStarscream betrays her]] and [[AGodAmI steals her power]], making him the definite BigBad.]]
* ''FanFic/CrownsOfTheKingdom'' has Maleficent, who controls the Dispirations. The final fight with her comes ''after'' the one with Chernabog.
* For [[https://www.fanfiction.net/u/4653566/Cynical-Classicist Cynical Classicist's]] Doctor Who fanfics, the War-Feeder is the most prominent villain in the stories feauturing the Eleventh Doctor and Norine.
* [[spoiler: [[DarkActionGirl V]]]] in ''FanFic/ACureForLove'' until her organization is [[HijackedByGanon Hijacked By]] [[HeelFaceRevolvingDoor Kira]].
* ''[[Fanfic/TheDarkLordsOfNerima The Dark Lords Ascendant]]'' has Tanizaki Kazuo, a CorruptCorporateExecutive who has big plans [[spoiler: to steal Sailor Moon's power]], and plays a game of XanatosSpeedChess to pit Ranma and the Nerima Wrecking Crew against the Senshi while he carries them out.
* [[https://www.fimfiction.net/story/114198/dawn-shield Dawn Shield]] has [[DemonLordsAndArchDevils Nag-ta]]
* Unsurprisingly, [[Series/BarneyAndFriends Barney]] serves as the main villain in the ''Fanfic/DayOfTheBarneyTrilogy''.
* Fanfic/TheDearSweetieBelleContinuity:
** Feather Duster serves as this for the "Dear Cutie Mark Crusaders" arc; despite [[WholeEpisodeFlashback technically being a flashback-only character]], he caused an immense amount of trouble which shaped the CMC's future lives to varying degrees. [[spoiler:He also attacks them in the present in "Cutie Mark Crusaders Dream Warriors" before being KilledOffForReal.]]
** In ''The Changelings Have a King'', [[BigBadDuumvirate Chrysalis and Carapace]] [[spoiler:(a.k.a. the transformed Prince Blueblood)]], the eponymous king, oversee the changeling hive's planned invasion of Equestria. That said, Carapace is much more TheHeavy, taking the lead in both forming and carrying out the plan, while Chrysalis seems more concerned with [[spoiler:her new brood (and it's hinted that Carapace is isolating and manipulating her)]].
* ''Fanfic/DeathNoteEquestria'': As VillainProtagonist, the role falls to [[FallenHero Twilight]] by default. Though one could argue that [[{{Shinigami}} Mer]] takes on the role of TheHeavy (if not outright BigBad) during Twilight's MemoryGambit, even though everything is [[ExactlyAsPlanned going according to Twilight's plan]].
* In the Dueling is Magic trilogy, each one has it's own BigBad.
** [[http://www.fimfiction.net/story/6342/my-little-pony-dueling-is-magic My Little Pony: Dueling is Magic!]]: Darkness.
** [[http://www.fimfiction.net/story/39321/dueling-is-magic-a-rip-in-time Dueling is Magic! A Rip in Time]]: Paradox.
** [[http://www.fimfiction.net/story/95347/dueling-is-magic-many-futures Dueling is Magic! Many Futures]]: The Black King/[[spoiler: Yusei Fudo.]]
* Baal in [[http://www.fanfiction.net/s/6984913/1/Disgaea_Jewel_of_the_gods Disgaea: Jewel of the gods]]
** Currently, it seems to now be a BigBadEnsemble with [[VideoGame/MakaiKingdom Seedle.]]
* In ''FanFic/DumbledoresArmyAndTheYearOfDarkness'', as in [[Literature/HarryPotter the books]], ultimately, Voldemort. Memories of the horror of his reign and the extremes required to end it echo through the sequels.
* [[Anime/SailorMoon Mercury]], from Fanfic/DungeonKeeperAmi. [[BlatantLies No, really,]] [[RunningGag she's Evil!]]
** A straighter Example would be [[GodOfEvil Azzaratha]], and later [[OurZombiesAreDifferent Crowned Death]]. Then [[BigBadDuumvirate Crowned Death AND Azzaratha]].
** A possible-subversion, Mukrezar
* ''Fanfic/TheElementsOfFriendship'', [=NightMare=] Moon in Book I, Trixie in Book IS, and Discord in Book II.
* In ''Fanfic/TheElementsOfHarmonyAndTheSaviorOfWorlds'', after almost thirty chapters of buildup and foreshadowing, it turns out that [[spoiler:Tirac]] is the one responsible for Luna's corruption into Nightmare Moon, and in the present is now plotting [[spoiler:revenge]] against Megan.
* ''Fanfic/{{Empathy}}'' has a VillainTeamUp between [[Disney/BigHero6 Yokai]] and [[spoiler: [[WesternAnimation/{{Home}} Captain Smek]]]], working together to open a portal for [[spoiler: the latter's [[TheManBehindTheMan master]], the Gorg]].
** The sequel ''Fanfic/{{Unity|Finmonster}}'' has the shadowy figure called Enigma. What he wants [[HiddenAgendaVillain isn't known yet]], but he appears to be plotting against the world's heroes.
* Count Logan in ''FanFic/TheEndOfEnds'', [[spoiler:at first, then he gets replaced by Beljar]].
* ''FanFic/EntitiesOfEmotion'' has a BigBadDuumvirate of the Negative Entities (Parallax, Ophidian, and the Butcher), working together to conquer Equestria. [[spoiler: By the climax, however, the Butcher has bonded with [[EnemyWithout Nightmare Moon]], with her taking the dominant role and his place in the alliance.]]
** The sequel, ''Dark is the Night'', has [[TheUndead Black Lantern]] King Sombra, who is working to unleash the [[ZombieApocalypse Blackest Night]] on Equestria.
* The LemonyNarrator of [[FanFic/EquestriaAHistoryRevealed Equestria: A History Revealed]] seems to think that Celestia is the evil behind it all, and never lets the reader forget it. But this thinking is just due to her clear bias, a more fitting BigBad would be the Nightmare Forces who were behind the Equestrian Civil War, birth of Nightmare Moon, and the Second Battle of Canterlot.
* ''Fanfic/{{Equestrylvania}}'': Obviously, as a crossover with ''Franchise/{{Castlevania}}'', it has {{Dracula}} as its main antagonist. However, like certain games in the series (like ''[[VideoGame/CastlevaniaBloodlines Bloodlines]]'' and ''[[VideoGame/CastlevaniaPortraitOfRuin Portrait of Ruin]]''), he's more of a GreaterScopeVillain (you know, due to being dead and everything), with the role of TheHeavy falling to his minions (primarily [[TheDragon Death]] and [[EvilGenius Actrise]] in this case) as they work to resurrect him.
* ''Manga/{{Evangelion 303}}'' has Seele, [[AncientConspiracy an ancient secret organization]] that has manipulated the world for centuries and plots launching a large-scale nuclear strike against several countries to end up with their global influence.
* [[https://www.fanfiction.net/s/11767392/1/Frigid-Future Frigid Future]]: At first it seems like Android 9/Commander Red is this, but he eventually gets killed by Doctor Gero/Android 20. Then Gero meets Cell, and when Gero dies, Cell quickly takes over as the Big Bad and FinalBoss.
* ''Fanfic/ForHisOwnSake'': Naru Narusegawa, Keitaro's girlfriend, is [[AdaptaionalVillainy here]] the ringleader of Keitaro's abusers, and sets out to make his life hell when he makes an effort to leave. It is slowly made clear that all his other abusers, even Motoko and [[ManipulativeBitch Granny Hina]], are being influenced by her. [[spoiler:Later, Kagura Hajime and Chisato Ichimura, two girls from the pasts of Keitaro and [[LoveInterest Nagisa]], show up and slowly hijack the plot, eventually forming a BigBadTriumvirate with Naru for one last revenge plan involving kidnapping Keitaro.]]
* ''FanFic/GameOfTouhou'' first main villain is Mad Queen Eiki Shiki, responsible for plunging the realm in war due to her KnightTemplar tendencies.
* ''FanFic/GettingBackOnYourHooves'' has [[TheSociopath Checker]] [[ManipulativeBitch Monarch]] [[spoiler: Trixie's sinister [[CainAndAbel sister]]]].
* ''FanFic/TheGodEmpressOfPonykind'': [[spoiler: The voice in Luna's head (later revealed to be [[ManipulativeBastard Tzeentch]]), which corrupts her and causes her to turn into Nightmare Moon]].
** The sequel, ''The Warmistress of Equestria'' has Tirac as its BigBad. Since he cannot yet manifest in the material world, his [[TheDragon Dragon]] Scorpan is set up to be TheHeavy until he arrives.
** The second sequel, ''The Empress Returns'', introduces [[GodOfEvil the Dark God Ascendant]], a powerful Chaos entity that killed the original four Gods of Chaos and wishes to see Celestia and the Imperium destroyed. Like Tirac above it cannot manifest in reality, so it has Lorgar and the Daemon Primarchs acting as its agents while it continues to grow in power.
* The Disney/{{Mulan}} AU fic ''FanFic/{{Hachin}}'' has Bataar's [[CainAndAbel half-brother]] [[PsychopathicManchild Unegan]] as the main antagonist, though the ghoul in his service is [[DragonInChief the greater threat]] [[spoiler: and turns out to be [[TheManBehindTheMan the one calling the shots]]]].
* ''Fanfic/HalloweenUnspectacular'' is an anthology series, but each edition has a central StoryArc, with its own main villain. During most of the first MythArc ([=HU1=] through [=HU4=], specifically), this is a bit more fluid, as there are also individual arcs not connected to the larger arcs. By [=HU5=], however, things are more settled, and definitely so by the second MythArc started in [=HU6=].
** In [=HU1=], there's Witch Ember for her arc, and [=ReGenesis=] [[spoiler: aka Dib]] for the main arc.
** In [=HU2=], there's the Underworld King for his arc, and [[spoiler: Dan Phantom]] for the main arc.
** In [=HU3=], there's Dan for the ''Batavia'' arc, and [[spoiler: Zombie King James I]] for the main arc.
** In [=HU4=], there's the Governor for the Gaol arc, and the [[BigBadDuumvirate alliance]] of Vlad, Morgan le Fay, Mr. Cromwell, and a mysterious cloaked figure for the main arc. [[spoiler: That figure turns out to be [[NotQuiteDead the Governor]] as well.]]
** In [=HU5=], there's an alliance of all the previous major villains [[spoiler: being [[TheManBehindTheMan manipulated]] by [[FallenHero Sir Galahad]]]].
** [=HU6=] and [=HU7=] have General Rausseman of [[ThoseWackyNazis PURITY]]. [=HU8=] continues the same MythArc, but establishes more of a BigBadEnsemble: Rausseman is still there, albeit mostly [[GreaterScopeVillain behind the scenes]], leaving the legwork to his [[TheQuisling lackey]] President Fulton. However, his actions have triggered the rise of two other forces determined to [[WellIntentionedExtremist stop him at all costs]] -- the Phoenix, who is willing to [[KnightTemplar kill anyone even remotely connected to PURITY or Fulton's regime]] ([[DisproportionateRetribution even innocent voters]]), and Galactus, who is willing to destroy Earth to stop PURITY from using its resources to conquer the universe.
** [=HU9=] has the mysterious figure known only as the Stranger, who wants to destroy [[AuthorAvatar E350]] as revenge for some prior offense. [[spoiler: He's ultimately revealed to be the Bus Driver, the recurring joke character from the first five editions, who blames E350 for ruining his life.]]
* In the first arc of ''ComicBook/{{Supergirl}}'' story ''Fanfic/HellsisterTrilogy'', Mordru puts an army of villains together to keep the ComicBook/{{Legion Of Super-Heroes}} busy while he looks to increase his own power. In the second and third arcs, Darkseid goes ahead with his plans to enslave all sentient beings.
* ''Fanfic/HelpFromAfar'': [[EvilOverlord Fire Lord Ozai]].
* ''Fanfic/{{HERZ}}'': The secret organization SEELE. In 2015 they tried to culminate their plan to merge all human souls into a single being. They failed and spent the next twelve years trying to build more Evangelions to carry out their goals, funding black projects and terrorist organizations.
* ''Fanfic/HopeForTheHeartless'': Arawn, the Death Lord of Annuvin and the former master of [[VillainProtagonist the Horned King]]. He was [[SealedEvilInACan imprisoned in the Black Cauldron]] centuries ago, and when [[Disney/TheBlackCauldron his former apprentice suffered the same fate]], Arawn tortured him. When the Horned King is released for a onetime RedemptionQuest, Arawn does everything [[LeakingCanOfEvil in his power]] to ensure that the Horned King fails and is [[AndIMustScream resealed in the Cauldron]] for him to eternally torture.
* ''FanFic/{{Horseshoes and Hand Grenades}}'':
** ''Horseshoes and Hand Grenades'': Ophiuchus and [[FallenHero Gentaro]] on one side and Gamou and the Horoscope Generals ([[TheBrute Leo]] and [[TheDragon Virgo]]) on the other.
** ''Month of Sundays'': Foundation X
* Emperor Vakudos from chapters 1 - 25 of FanFic/Hottie3TheBestFanFicInTheWorld, his daughter, Princess Lotora AKA Empress Lotora in chapters 25 -75, Zorndrek in chapters 76 - 94, then finally Carmen, the main vilain of Literature/{{Hottie}}.
* [[spoiler: Carly]] Shay in ''[[http://www.fanfiction.net/s/8532906/1/iFightCrimeWithVictorious iFight Crime With Victorious]]'' from a BadFuture where most of [[spoiler: her friends and family were killed and she became obsessed with hording powers]].
* ''FanFic/TheImmortalGame'' has King Titan, Celestia and Luna's ArchnemesisDad and the creator/original ruler of Equestria. He also happens to be a [[TheSocialDarwinist Social Darwinist]] GodOfEvil bordering on being a full-blown EldritchAbomination, which is why the princesses [[SealedEvilInACan sealed him away]] in the first place.
* The BigBad of [[http://www.fimfiction.net/story/15353/inner-glory Inner Glory]] is Thael the Metaspecter, [[spoiler:except he is a RedHerring; the real villain is Seren, the alicorn of vengeance]].
* ''FanFic/ItadakiNoHecate'': As of the second season, [[spoiler:Southvalley]] is Yuji and Hecate’s greatest foe, as [[spoiler:he plans to [[BrokenMasquerade break the]] {{Masquerade}} and draw the entire world into the Haze-Denizen ForeverWar in a desperate attempt to finally win]].
** ''[[https://m.fanfiction.net/s/4109165/1/Shakugan-no-Shana-Eternity Shakugan no Shana: Eternity]]'', by the same author, has the canon antagonist, the Snake of the Festival, after some {{Arc Villain}}s are dealt with. He aims to create a perfect world for [[TheLegionsOfHell Crimson Denizens]], and [[UtopiaJustifiesTheMeans wants to destroy the current one to do so]]. Notably, unlike canon, [[spoiler:he actually ''[[AdaptationalKarma loses]]'' in the end]].
** ''[[https://m.fanfiction.net/s/4949134/1/Shakugan-no-Shana-Eternal-Alliance Shakugan no Shana: Eternal Alliance]]'' has the Mouth of Power, a mysterious MalevolentMaskedMan who controls the forces of [[CreatureHunterOrganization Outlaw]], with the intention of [[FinalSolution wiping out]] the [[VanHelsingHateCrimes entire Crimson Denizen race]]. It is eventually revealed that the true identity of the man under the mask is [[spoiler:[[CollectiveIdentity not a single person]], but an entire OmniscientCouncilOfVagueness. Among their ranks are a Johan-lookalike called The Immortal and a woman who is implied to be Mare, the antagonist of the Shana [=PS2=]/[=DS=] game and the first two episodes of the second season]].
* ''FanFic/IWarrior'' has the enigmatic Sith known as TheMaster, who turns out to be [[spoiler: a clone of Anakin Solo]].
* ''FanFic/JusticeLeagueOfEquestria'':
** ''Mare of Steel'': The first arc has [[AGodAmI General Zod]], while the second arc has a VillainTeamUp of [[ComicBook/LexLuthor Alexander Silversmith]] and ComicBook/{{Brainiac}}.
** ''The Princess of Themyscira'' has [[GodOfEvil Ares]].
** [[spoiler: {{ComicBook/Darkseid}}]] is set up to be the BigBad of the main ''Justice League Of Equestria'' story, being the GreaterScopeVillain of the series overall.
* [[EvilSorceror Radcliffe]] in Fanfic/KeepersOfTheElements.
* ''Fanfic/KingdomHeartsCodyStory'': Maleficent starts off as this at first, manipulating half the total Drama contestants to help her seek the hearts of all worlds. This is subverted in the Hollow Bastion chapter, where [[HijackedByGanon Ansem takes over as the villain for the rest of the story]].
* ''Fanfic/LanternsOfEquestriaBlackestNight'' has the Black Lantern of Commander Hurricane as the primary antagonist, with [[EldritchAbomination the Black]] as the GreaterScopeVillain.
* The ''[[FanFic/TheEquestriaChronicles Legends of Equestria]]'' continuity introduces The Emperor, the lizard-like leader of an ultra-advanced race that controls a [[TheEmpire planet-wide empire]], of which Equestria is "but a speck". When Celestia and Luna first overthrow Discord, he shows up to assert his control. Being unable to defeat them in single combat, he vows to return with his army should they ever lose control of the kingdom. That said, he is more of a looming GreaterScopeVillain for the two Acts which so far compose the story, with the ambitious technocrat Seraph directly taking this role instead for Act I, while in Act II [[spoiler:[[VillainProtagonist the increasingly paranoid and controlling Celestia]]]] takes over.
* There are five of these in ''Fanfic/TheLionKingAdventures'':
** [[EvilSorcerer Hago]] in Series One.
** [[EnfantTerrible Tama]] in Series Two.
** [[spoiler: [[TheGrimReaper Death]]]] in Series Three.
** [[spoiler: [[DemonicPossession The Vimelea]]]] and [[WhoWantsToLiveForever Shocker]] share this role in Series Four.
** [[spoiler: [[GodOfEvil The Writer]]]] in Series Five, [[spoiler: also serving as the UltimateEvil for the entire series.]]
* In the beginning of ''Fanfic/LovedAndLost'', an extended retelling of "A Canterlot Wedding", Prince Jewelius [[TheUsurper steals Equestria's throne]] right after he has helped Twilight Sparkle in stopping the Changeling invasion by manipulating the public and [[CorruptTheCutie Twilight herself]] to turn against the princesses, Shining Armor and Twilight's friends, banishing them all from Equestria as [[HeroWithBadPublicity hated pariahs]]. They then spend the rest of the story trying to earn back everypony's (especially Twilight's) trust and expose [[CassandraTruth an unbelievable truth]] they learn about [[VillainWithGoodPublicity "Holy King Jewelius I"]]; [[spoiler:he [[EvilAllAlong himself]] told [[BigBadWannabe Queen Chrysalis]] about [[CainAndAbel his cousin Cadance]] and Shining Armor's wedding and stroke a partnership to take control of Equestria with Chrysalis. He helped her to sneak into Canterlot by telling her how to enter the caverns underneath the castle, and he lured Cadance into a trap, allowing Chrysalis to take her place. However, after making himself a LoveInterestTraitor for Twilight, he double-crossed the Changelings [[XanatosSpeedChess at the last minute]]. After the heroes defeat the army of Jewelius -- who's been exposed as a monstrous fraud to everypony -- and corner him in the final battle, he's [[DevouredByTheHorde killed by the Changelings]] for his betrayal. Queen Chrysalis then attempts to take back the main antagonist role, only for Cadance and Shining Armor to finally give the Changelings [[ATwinkleInTheSky their canon defeat]] that has been delayed only because of the plot twists caused by Jewelius]].
* The ultimate enemy in ''Fanfic/MaxWolfRevolutions'' is Dimonox/Abominox, an EldritchAbomination who is also a GenericDoomsdayVillain who wants to destroy the entire Universe.
* ''Fanfic/MortalKombatDesperation'' has [[FallenHero Dark Raiden]], who instigates a war between Outworld and Earthrealm out of nothing but revenge, but it slowly twists into a desire to become the GodEmperor of all realms known and unknown in Mortal Kombat.
* ''[[FanFic/MLPNextGenerationKnowFear MLP Next Generation: Know Fear!]]'' has Stratus, TheEmperor of the griffons, who starts the war with Equestria out of nothing but FantasticRacism and a desire to TakeOverTheWorld.
* The ''FanFic/MyHostageNotYours'' trilogy:
** ''My Hostage, Not Yours'': The [[GodSaveUsFromTheQueen Valkian Queen]], who's trying to steal the LEECHY from Gaz so she can defeat the Irkens.
** ''The Revenge of Player 2'': [[spoiler: Iggins]], who wants revenge against Gaz for past actions against him.
** ''The Inevitable Takeover'': [[UnholyMatrimony Zim and Gaz]], who switch from [[AntiHero Anti-Heroes]][=/=][[AntiVillain Anti-Villains]] to full {{Villain Protagonist}}s to take over Earth. The Tallest could also be seen as the {{Greater Scope Villain}}s, since Zim is still loyal to them.
* Theoretically, [[Franchise/HarryPotter Voldemort]] in ''Fanfic/MyImmortal''. He doesn't actually do anything except show up, yell at Enoby, then leave.
* ''FanFic/MyLittleAvengers'' has [[GodOfEvil Loki]], who manages to [[TheChessmaster manipulate the entire plot in his favor]] up until the FinalBattle as part of his plot to TakeOverTheWorld.
* ''Fanfic/MyBravePonyStarfleetMagic'':
** Titan in ''My Little Unicorn''[=/=]''My Brave Unicorn: Star Fleet Magic'' [[spoiler: and ''My Brave Pony: TheMovie'']].
** Queen Chrysalis in ''My Brave Pony: Star Fleet Magic II''.
** King Sombra in ''My Brave Pony: Star Fleet Magic III''.
** Sapphira in ''My Brave Pony: Starfleet Humans''.
** The Dark King in ''My Brave Pony: Star Fleet Magic IV''.
* [[http://www.fimfiction.net/story/36342/legacy-of-the-pegasi Legacy of the Pegasi]] has Typhonis who despite the name is ''not'' an alicorn OC, although his power and size is definitely on par with one.
* In ''FanFic/NeonGenesisEvangelionGenocide'', Gendo keeps plotting the end of the world to reunite with his wife again, even though the war is over. His new schemes involving the Emerald Tablet, a strange and unpredictable computer program for which he has great plans, hurt his son and the other pilots again, forcing Misato to take drastic measures to protect her family. [[spoiler:In the end, Gendo is supplanted by the Emerald Tablet, who has mutated [[AIIsACrapshoot into a mad A.I.]], hell-bent on its own version of [[AssimilationPlot Instrumentally]].]]
* The plot of the ''WesternAnimation/{{Rango}}'' fic ''Fanfic/OldWest'' is driven by Dufayel, a wealthy French-speaking fox who invested the EvilPlan of the movie's late BigBad. He hires other villains to claim the heroes' properties -- first legally, then [[ThisMeansWar more forcefully]] -- because [[spoiler:there's a great underground gold deposit which he was promised by his late business partner. Dufayel is desperate to claim it, especially because he's threatened by bankruptcy, a result of him investing nearly everything he had on Tortoise John's plan]].
* ''FanFic/PagesOfHarmony'' and its sequel, ''FanFic/EmpressOfHarmony'', have Twilight Sparkle as a WellIntentionedExtremist who does scientific procedures on her friends and kills them to preserve Harmony because UtopiaJustifiesTheMeans.
* In ''Fanfic/PerfectionIsOverrated'', while the Obsidian Lord, the canon antagonist, is still active, The Usurper directs the [=SUEs=] in their efforts to defeat [[Anime/MaiHime the Himes]]. He even [[spoiler:[[DemonicPossession possesses]] the Obsidian Lord, but is killed after his minions are defeated and the Obsidian Lord is forced from Reito's body]]. In the Chapter 17-19 arc, [[spoiler:Ishigami, Nagi and the Bachiko and Meiko pair]] [[GambitPileup all put their own plans into motion]].
* ''Fanfic/PersonaVein'' has Saklas, the Angel of Control that came from the alternate ending future of VideoGame/Persona5 and literally has the alternate Yaldabaoth as his Persona. His plan was to challenge the Phantom Thieves in the main timeline that they defeated Yaldabaoth, and destroys their universe alongside himself so that society won't dictate their lives.
* ''FanFic/ThePiecesLieWhereTheyFell'': There is one, and it's the reason a new generation of Bearers are needed. [[spoiler: It turns out to be the Power known as the Nightmare, which had once possessed Princess Luna and was now controlling the King of Equestria.]]
* In ''Fanfic/PokemonMysteryDungeonDefendersOfWarmth'', Kuyurem, who not only [[spoiler: is trying to eat the spirits of all who exist]] and [[spoiler: is responsible for the deaths of all the humans-turned pokémon]] but also [[spoiler: continues to threaten the land after being defeated]].
* ''Fanfic/PokemonMysteryDungeonPowerTrip'' has [[spoiler:Victini]], who is [[spoiler:A human who believes that the Alpha Preserve must be opened to humans]].
* Ho-oh in ''Fanfic/PokeWars'', [[spoiler: who is later forcibly replaced by his EvilGenius, Uxie, who is a billion times worse.]]
* The ''FanFic/PonyPOVSeries'' is an interesting example: while Discord is only the direct BigBad in certain {{Story Arc}}s, he's also the GreaterScopeVillain of the series as a whole, as even the arcs where he doesn't show up in person are still all the fallout from his actions in canon and the BackStory [[spoiler: and there's also a subplot running through the series about his backup plan to escape his prison again]]. For the sake of precision, we'll break it down by arc:
** Naturally, Discord himself in the original Discorded Ponies series, as it's set during his canon appearance. This also includes the alternate ending Epilogue (eventually expanded on in the Dark World arc), which shows what [[BadFuture would have happened]] had he actually [[TheBadGuyWins managed to win]].
** The Reharmonization arc has [[spoiler: [[EnemyWithin Loneliness]]]] -- maybe not the arc as a whole, but the subplot about saving Trixie, which runs through a good chunk of it.
** The Pearls arc has [[WellIntentionedExtremist Princess Gaia]][=/=][[spoiler: [[WoobieDestroyerOfWorlds Nightmare Whisper]]]], [[spoiler: Fluttershy's SuperpoweredEvilSide]].
** The "AJ's Dream" two-parter has [[TheAssimilator Nightmare Mirror]], [[spoiler: Applejack's AlternateUniverse SuperpoweredEvilSide]].
** [[TheSocialDarwinist Strife]], Discord's sister, could arguably be said to be the BigBad of the Generational Transition arc, as of all the Draconequi she was definitely TheHeavy of the arc, and also served as the FinalBoss for the last survivors of the Gen 3.5 universe. Though, she was just doing her job [[spoiler: and was trying to give them a chance to prove their right to exist]].
** Discord takes center stage again in Origins, due to it being his StartOfDarkness.
** The Mind Games arc has Discord again [[spoiler: as he manipulates Diamond Tiara into freeing him]].
** The Dark World arc returns to the BadFuture and thus Alternate!Discord is still the BigBad. Considering we're seeing it from a VillainProtagonist perspective at first, [[HeroAntagonist Queen Cadence]] could also count as having been one in the past. Meanwhile, [[TheStarscream the Valeyard's]] FinalSpeech implies Discord isn't [[BigBadEnsemble the only Big Bad]]... [[spoiler: It now appears to be [[TheVoice the Nameless Passenger]], which is shaping up as TheCorrupter (especially to Twilight) and a KnightTemplar willing to sacrifice anything to defeat Discord.]] This entity ultimately ends up as the FinalBoss and reveals itself to be [[spoiler: [[SuperpoweredEvilSide Nightmare]] [[IHaveManyNames Eclipse/Paradox]], an [[FutureMeScaresMe potential future incarnation]] of Dark World!Twilight who was [[HeWhoFightsMonsters consumed by her hatred]] of Discord, condemning him to [[GroundhogDayLoop a time loop]] that always ends in his death, followed by Twilight's transformation and the reseting of the loop, [[OmnicidalManiac destroying each version of Dark World]]]].
** Shining Armor's arc has [[GeneralRipper General-Admiral Makarov]] of the [[TheEmpire Hooviet Empire]] [[spoiler: in actuality, an [[HumanoidAbomination Equineoid Abomination]] called the Shadow of Chernobull]]. Though there's [[BigBadEnsemble also]] [[ClockRoaches the Wolf]], an AnimalisticAbomination that sees Shining as a threat to the timeline and wants to [[RetGone erase]] him.
*** [[spoiler: Makarov ends up [[RetGone erased]] by the Wolf, which then takes over the role of primary threat, as it's still after Shining.]]
** [[GodSaveUsFromTheQueen Queen Cocoon]] serves as this (in an EvilVersusEvil way) in Chrysalis' OriginsEpisode.
** Chrysalis herself is the BigBad of the Wedding Arc, as per canon.
** Several stories in the ''Gaiden: 7 Dreams/Nightmares'' collection have antagonists:
*** Patch's story has several villains over the course of her quest for the Rainbow of Light fragments, but the most prominent are [[StarterVillain Film Critique]], [[OurDragonsAreDifferent Basil]], and Grogar, who serves as FinalBoss.
*** Melody's story has [[TyrantTakesTheHelm Sharp Spear]], whose FantasticRacism towards Earth Ponies makes him a threat to Melody's family, especially once his son and her daughter become StarCrossedLovers. [[spoiler: (Though he does eventually have a HeelFaceTurn.)]]
*** Bright Eyes' story has [[spoiler: the Shadow of Existence of Discord's brother [[UnPerson D___t]], who briefly poses as her EnemyWithin Cruel Eyes, and tries twice to absorb her soul and potential Concept in order to reconstitute himself. He also spends the entire Nightmares section stalking her as a presence she feels lurking over her whenever she feels emotionally vulnerable.]]
*** Clover's story, after a few [[BigBadWannabe wannabes]], gets the closest thing to main antagonist in the shape of TheMaster -- no, [[NamesTheSame not]] [[Series/DoctorWho that one]], who also exists in this universe. This one, who turns out to be [[spoiler: a Diamond Dog named FluffyTheTerrible posing as an old unicorn]], uses an army of ponies he conditioned as orphaned foals to run a slave-powered mining operation that Clover's family eventually stumbles on. And he proves how dangerous he is by [[spoiler: [[HeroKiller killing Scout]]]]. That said, her FinalBoss ends up being a group of {{Eldritch Abomination}}s so dangerous that Fauna Luster and Entropy ''[[EnemyMine worked together]]'' to [[SealedEvilInACan seal them away]], and who try to trick Clover into freeing them.
** [[spoiler:Discord]] and Umbra Breeze[[spoiler:/Nyarlathotrot]] are the BigBadDuumvirate for the Finale Arc with their plan to [[spoiler:[[RewritingReality rewrite the world into a grimdark]] CrapsackWorld.]]
** One could also argue that even when Discord is the BigBad, the series still has a GreaterScopeVillain in his father [[EldritchAbomination Havoc]] -- after all, he's the one who created Discord in the first place, and is also responsible for pretty much everything he's done in Equestria [[spoiler: since he fed Discord ''his own brother'' (as well as Havoc's own avatar) in order to increase his power, before having him reborn in the mortal world]]. He was also the DiscOneFinalBoss of Origins. Though it should be noted this is an insane Avatar of Havoc, as the ''true'' Havoc thought said Avatar was insane for doing it, the ''actual'' Havoc's actions, while a bit extreme from mortal standards (but [[BlueAndOrangeMorality grounded in his standards]] as [[GoodIsNotNice the patriarch of Nature's Fury]]), were ultimately well-intentioned at worst and would never have condoned the things his avatar did when it went out of control. Under normal circumstanced, Havoc is ironically a ''BigGood'' for the setting.
* The ''[[Fanfic/PonyPOVSeriesChaosVerse Chaos Verse]]'' (an official spinoff of the ''FanFic/PonyPOVSeries'') has [[spoiler: [[EnemyWithout Nightmare Phobia]]]]. Interestingly, in addition to being the main antagonist of the story, she's also stated to be behind many events of canon by manipulating ponies (including the Mane Six) through their fears.
* ''FanFic/ThePowersOfHarmony'': After a lot of buildup, the mysterious entity Cetus reveals herself as the main antagonist. She turns out to be [[spoiler: Nightmare Moon's Echo]], and is planning to [[TakeOverTheWorld take over Equestria]] and then to [[spoiler: complete Nightmare Moon's [[TheNightThatNeverEnds goal]]]]. [[spoiler:Subverted since the entire sequence of events is part of [[BigGood Harmony's]] scenario for strengthening the Element bearers and preparing them for Discord's return.]]
* ''Fanfic/PrincipalCelestiaHuntsTheUndead'': The lead vampire, who turns out to be none other than [[spoiler:Abacus Cinch]].
* [[FanFic/RainboomsAndRoyalty The Dashverse]]:
** ''Rainbooms And Royalty'': [[MadGod Nightmare Moon]].
** ''May The Best Friends Win'': [[PoisonousFriend Trixie]] -- not really evil, but her attempts to drive a wedge between Rainbow Dash and her other friends drives the plot.
** ''Hot Heads, Cold Hearts, and Nerves of Steel'': [[EvilOverlord King Sombra]].
** ''Wedding Bells Bug Hunt'': [[GodSaveUsFromTheQueen Queen Chrysalis]].
* [[Fanfic/RainbowDoubleDashsLunaverse The Lunaverse]]'s overall BigBad is [[AGodAmI Corona]], the struggle with whom forms the series' MythArc. However, as she's left severely weakened in Season 1 by her first confrontation with the Elements of Harmony, she ends up [[BigBadEnsemble sharing]] the role with the cabal of [[DeadlyDecadentCourt corrupt Night Court nobles]] led by [[ManipulativeBastard Duke Greengrass]]. But with their defeat in ''At The Grand Galloping Gala'', Corona is free to take back sole BigBad duties in Season 2 as she increasingly regains her powers.
* [[http://www.fimfiction.net/story/78420/reharmony Re:Harmony]] has [[AdaptationalVillainy Chancellor Posey.]] Later on, [[TheSocialDarwinist the Empress Commander of the Pegasai]] and [[spoiler: [[[[OutsideContextProblem Chrysalis]]]] come in, making this this a BigBadEnsemble.
* ''FanFic/TheResurrectionOfRose'' has Rose the Hat as in the [[Literature/DoctorSleep canonical novel and film]]. The [[Film/TheShining Overlook Hotel]] also becomes a major player.
* ''FanFic/{{Revival}}'' has Maya Lottie an avatar of [[Franchise/CthulhuMythos Nyarlathotep]] who stages the events of the story to usher in the entry of the [[EldritchAbomination Outer Gods]].
* ''[[https://www.fanfiction.net/s/8383248/1/ The Road Paved in Concepts]]'' has [[Anime/PrincessTutu Drosselmeyer]], whose plot is ambiguous but it has to do with taking over all fictional universes.
* ''Fanfic/RubyAndNora'' has Salem, like in canon.
* ''FanFic/RWBYDestinyOfRemnant'' has, just like in canon, Salem.
* ''FanFic/SaetwosStory'' has Romelau [[spoiler: the leader of the Fleens, who also [[TheManBehindTheMan sent the Bloats]] to conquer Zoombini island.]]
* [[http://www.fimfiction.net/story/239229/shanghaid Shanghai'd!]] has General Verulius Constantine; the changeling Half-Blood Tyrant, with Queen Chrysalis and Leere as the GreaterScopeVillain.
* ''FanFic/ShadowsAwakening'' has a somewhat complex BigBadEnsemble: [[EvilSorcerer Daolon Wong]] is definitely TheHeavy, being the one who instigated and drives the plot, but partway through the story he allies with [[OurGhostsAreDifferent The Phantom/Kyosuke]], who makes it clear from day one that he's only using Wong to further his own ends. Meanwhile, in addition to the heroes, they're also [[EvilVersusEvil at odds]] with another VillainTeamUp of [[SealedEvilInACan Tarakudo]] and [[EnemyWithin The Queen]] (who seems to be chafing under Tarakudo's leadership), who want to corrupt Jade for their own purposes.
** This setup is resolved near the end of the story -- [[spoiler: Wong is defeated by the heroes, but the Queen's corruption of Jade is completed enough that the Tiger Talisman responds by [[EnemyWithout separating them]], giving the Queen a body of her own to work with; she defeats the heroes and depowers Wong, at which point Kyosuke reveals he and the Queen cut a deal behind their partners' backs, and now that she's proven herself worthy, he declares loyalty to her, [[DemotedToDragon demoting himself to her Dragon]].]] So, in the end, it appears that [[spoiler: the Queen]] has emerged from the Ensemble as main antagonist.
* In [[http://www.fimfiction.net/story/148281/somber-ties Somber Ties,]] Lord Cruciger seems to be shaping up to be this.
* ''Fanfic/SoulEaterTroubledSouls'' has [[RedBaron Massacre Queen]] Cancer Lucrenian. Two years prior to the start of the fanfic, she committed genocide against [[BadassFamily the Vladingham Family]], a "legacy family" with close ties to Death Weapon Meister Academy, earning her nickname and the contempt of Lord Death. Now, she is working on something called Project 00000Ω: Omega to create a new world, one without hope.
* ''FanFic/TheStarsWillAidTheirEscape'' has Herald, who is implied, and eventually confirmed, to be an avatar of [[Franchise/CthulhuMythos Nyarlathotep]] working to release [[GreaterScopeVillain the Outer Gods]] onto Equestria.
* In ''FanFic/TheStoryToEndAllStories'', it's the one responsible for unleashing the Nothing. It turns out to be someone none of the characters had even heard of, let alone suspected.
* Princess Jody from [[http://alaxr274.deviantart.com/gallery/33810717 Super Milestone Wars]].
** The Biggest Bad in the first half of [[http://alaxr274.deviantart.com/gallery/36864527 Super Milestone Wars 2]]. King Dyce in the second half and Princess Jody in the 3rd half.
** Don Tyrano in [[http://fav.me/d5f2u52 Super Milestone Wars: Year One]]
** Dr. Beeswax in [[http://fav.me/d5kqh6t Supetastic 6: Year Four]]
* Illua is the BigBad of FanFic/TheTaintedGrimoire.
* In the ''FanFic/TamersForeverSeries'', [=BlackWargreymon=] fills this role in the second book ''Omni-Tamer'' by virtue of being the only recurring threat.
** In the third book: ''Forget the [[MillenniumBug [=Y2K=]]], This is Madness!!'' the sadistic Nightmare virus becomes the prominent threat to the Tamers
** However the Nightmare itself pales when compared to the overwhelming power of the psychotic [[spoiler: Daemon]], who sends his [[TheDragon Agent]] to weaken the Tamers during the fourth book: ''Theory of Chaos'', before terrorising them personally throughout ''Silent Sorrow''
* The ''FanFic/TeenTitansSaga'': While Slade and [[spoiler: the Fifth Director/HIVE Master]] are the overall Big Bads of the series' two main {{Story Arc}}s, each story has its own:
** ''The Abyss Gazes Also'': Dark Raven
** ''The Art of War'': General Immortus
** ''Child of the Stars'': Blackfire
** ''Luck of the Draw'': The HIVE Mistress
** ''Abandon Hope, All Ye Who Enter'': Veneficus
** ''Sins of the Father'': Slade
** ''Shadow of the HIVE'': [[spoiler: The HIVE Master]]
* ''Fanfic/TheBridge'' has the mysterious entity that brings the {{Kaiju}} to Equestria, and creates a LegionOfDoom out of the worst of them. It ultimately turns out to be [[spoiler: [[OmnicidalManiac Bagan]]]]. Letter developments reveal [[spoiler:the Shadow King [[GodOfEvil Grogar]], the Nexus of Dark Magic and a being on par with Bagan and Harmony, also exists and [[BigBadEnsemble is likely to share billing with Bagan for this trope.]]]]
** The spinoff/side story ''The Bridge: Sound of Thunder'' has a BigBadDuumvirate of [[spoiler: the MirrorUniverse versions of [[BloodKnight Godzilla]] and [[GodSaveUsFromTheQueen Cadence]]]].
** The spinoff crossover with ''FanFic/TheShimmerverse'', ''The Bridge: A Shimmer in the Dark'', has [[OurVampiresAreDifferent Countess Mircalla]], with [[spoiler: Bagan]] acting as GreaterScopeVillain via his [[FightingAShadow Aspect]] Mizu.
** ''Fanfic/TheBridgeHumanitysStand'' also has [[spoiler: Bagan]] as GreaterScopeVillain, being TheManBehindTheMan to the [[ApocalypseCult Red Dawn]] organization that serves as the primary antagonists.
** Another spinoff {{Prequel}}, ''The Bridge: The Eclipse Times'' has [[GodSaveUsFromTheQueen Queen Chrysalis]] as the main villain during her original attack on Equestria a thousand years ago shortly after the banishment of Nightmare Moon.
* ''Fanfic/ThroughTheWellOfPirene'' has the King of Wands, Nessus, an absolute mountain of a centaur intent on fulfilling an ancient prophecy and 'shaping the world to come'. Rumors of his death via hydra-venom-soaked arrow in Greek mythology were greatly exaggerated.
* ''Fanfic/TheUzumakiTalesReturnOfTheWhirlpool'' is very interesting in that regard, as thanks to a lack of a SortingAlgorithmOfEvil, several antagonists battle for the title of the big bad. Although [[spoiler: Obito Uchiha is the one that caused most of the mess in the first place]], Itachi Uchiha and Orochimaru are also sources of much misery and pulling many strings. Time can only tell where this will lead to.
* ''FanFic/TimeLordsAndTerror'': [[WickedWitch Matron Hydia]] is TheHeavy for most of the story, carrying out a plot to release [[spoiler: [[EldritchAbomination the S'Muz]]]] and conquer TheMultiverse... unfortunately for her, [[spoiler: the S'Muz]] is an OmnicidalManiac to the extreme, and it proves itself [[EvilerThanThou worse than Hydia]] [[spoiler: by rendering her DeaderThanDead]] before becoming the TrueFinalBoss.
** The sequel ''FanFic/MinesOfDragonMountain'' initially has [[WellIntentionedExtremist Gabbro]], who is willing to do anything to stop the Diamond Dogs from accidentally [[spoiler: [[SealedEvilInACan releasing Tirac]]]]. However, about halfway through, it turns out [[spoiler: Tirac has been [[TheManBehindTheMan manipulating Gabbro the whole time]]]], at which point [[spoiler: Tirac]] becomes the direct BigBad.
* ''Series/BuffyTheVampireSlayer''/''ComicBook/{{Supergirl}}'' crossover ''Fanfic/TheVampireOfSteel'' has John Vladislav in the first story, a boss of a vampire mob that intends to open a Hellmouth in Chicago and summon an EldritchAbomination. The second story has Zol-Am, a Kryptonian turned vampire who assembles an army of vampires and demons to wipe out the Scooby Gang and Supergirl and then opening the Hellmouth.
* Each story in FanFic/TheVinylAndOctaviaSeries has at least on antagonist per story, although the extent to which they participate in the plot depends upon whether the story is an Adventure or Slice of Life story.
** ''Vinyl and Octavia Machete Their Way Through the Jungle'': Baron von Darkhoof and Stumblefeather.
** ''Vinyl and Octavia Get Incredibly Drunk'': The bartender.
** ''Vinyl and Octavia Are Forcibly Shipped'': [[spoiler: Baron von Darkhoof and Stumblefeather, again.]]
** ''Vinyl and Octavia Fight Ten Thousand Ninjas'': [[spoiler: Octavius and Bass Drop.]]
** ''Vinyl and Octavia Have Multiple Dates'': Neon Lights.
* The Vizard Trilogy had an interesting variant. Each of the four stories has its own BigBad, all of whom are part of the main group of villains, but the most involved in the overarching plot is Asayama Shiba. By contrast, her leader, Takeshi Katano, is a NonActionBigBad; he's the most powerful member of the villainous group and the leader of the Visoreds, but he barely does anything present-time, apart from sending an underling to save Ami and Rukia after a fight. However, the reason Asayama got so far was because Katano ''let'' her continue her machinations.
* In ''Fanfic/WithStringsAttached'', there are two: [[spoiler: Jeft]], who was responsible for all the crap in the Second and Third Movements, and [[spoiler: Brox]], whose machinations are responsible for the Fourth Movement.
* The ''Manga/MedakaBox'' fanfic ''Fanfic/WorldAsMyth'' has a different BigBad for each story arc:
** In the first arc, we have [[spoiler:[[TheChessmaster Hanhaba Shiranui]]]], acting as TheManBehindTheMan for [[spoiler:[[JerkassWoobie Koi Munakata]].]]
** For the second arc, it seems to be either [[spoiler:[[CorruptCorporateExecutive Hanten Shiranui]]]] or [[spoiler:[[LoveMakesYouEvil Maguro Kurokami]].]]
* The Conceptivore is the big bad in ''TheWorldOfTheCreatures''. It's an idea-eating thought monster that invades peoples' minds and brings to life the total sum of all their thoughts/feelings/experiences/etc. just so that it can devour them, leaving the victim with no sense of self.
* ''Fanfic/YuGiOhTheThousandYearDoor'' has the Shadow Queen, whom plots to defeat the heirs to the Three Heroes who defeated her so she can escape her palace, unable to leave it until she does so due to the curse the Three Heroes placed on her.
* [[http://www.fanfiction.net/u/75340/ Silent Elegy]]'s series of ''WesternAnimation/DannyPhantom'' fan fics has a BigBadEnsemble. Every story has its own BigBad; in addition to the standalones, there are villains who are involved in multiple stories: [[TheChessmaster Vlad]], [[TheSociopath "Silver" Meryll Santiago]], [[spoiler: [[HeWhoFightsMonsters the Paranormal Society]]]], and [[{{Technopath}} Technus]] takes center stage in several stories. For the sake of precision, let's break it down by story:
** ''Pandora's Box'': The [[PlayingWithFire titular]] [[JerkassGenie character.]]
** ''Electric Rhapsody'': A VillainTeamUp between Technus and Ember.
** ''Starcrossed'': The ghosts of Ronan and Julia are the joint [[TheHeavy Heavy]], but the whole plot was an EvilPlan by Vlad.
** ''The Dark Angel'': [[ProfessionalKiller Ebony Angel]], paid off by Vlad.
** ''What If?'': The BigBad of the AlternateUniverse appears to be [[PhysicalGod Pariah Dark]] [[spoiler: but it turns out he was successfully [[TheStarscream Starscreamed]] by Vlad.]]
** ''Cat and Mouse'': Silver.
** ''Flawless Fiona Fenton'': Technically Fiona; she's not evil, but she's TheHeavy of the story.
** ''Hounds and Hunters'': Silver, again, though this time the [[EldritchAbomination malefactors]] [[EvilVersusEvil aren't under her control]].
** ''Electric Angel'': Starts out as an Ensemble between Ebony Angel and Technus, but he quickly proves [[EvilerThanThou worse than her]], forcing her to [[EnemyMine team up with Danny]] against him.
** ''Black and White'': Silver yet again, rounding out her trilogy. This time, in addition to the malefactors, Danny also has to deal with [[EldritchAbomination the Malice]] [[spoiler: the collective ghosts of everyone Silver's ever killed]].
** ''Erik'': The titular AxCrazy ghost, who thinks he's Literature/ThePhantomOfTheOpera.
** ''Whistlin' Dixie'': At first there's the [[PunchClockVillain Ghost Master and his haunters]], but the [[EvilerThanThou true threat]] turns out to be [[spoiler: the Paranormal Society]].
** ''Dance of Bone'': [[GodOfEvil Necrowind]].
** ''Guys and Dolls'': Technically Fiona, but it turns she's taking orders from [[spoiler: [[TheOmnipotent Elegy's]] EvilTwin Nocturne]].
** ''Phantasmis ex Machina'': A VillainTeamUp of Vlad, Skulker, and Technus. While Vlad is nominally in charge, Technus ends up going rogue with his own plans. [[spoiler: [[XanatosSpeedChess Not that Vlad cares...]]]]
** ''Shattered Reflections'': Skulker ''[[BigBadWannabe tries]]'' to finally be BigBad in this story, but quickly [[EvilerThanThou loses out]] to the AlternateUniverse counterparts of himself and Kat/Elektra.
** ''A Step Too Far'': None, though Kat's prank is what sets the plot in motion.
** ''Dance of the Pales'': Starts out with [[FutureMeScaresMe the future Valerie]], though she ends up a pawn of [[spoiler: Silver]].
** ''Lament Impromptu'': None, as the whole thing turns out to be Elegy engineering a BreatherEpisode.
** ''Time Crisis'': Dan.
* Professor Moriarty is the most popular BigBad in [[Literature/SherlockHolmes Sherlockian]] fanfiction by virtue of being the trope canonically... but Colonel Moran has also had his moments of behind-the-scenes glory.
** In ''Fanfic/AStudyInRegret'', Moran is indeed the BigBad, playing quite the XanatosSpeedChess with [[InspectorLestrade Lestrade]] and Holmes.
** ''Fanfic/TheGhostMap'' utilizes Moran as the BigBad with Moriarty revealed as the GreaterScopeVillain.
** The ''Fanfic/DeliverUsFromEvilSeries'' starts out with Professor Moriarty as the BigBad. After his death, however, the role splits along with the protagonist focus: ''Colonel'' Moriarty plays the BigBad to Watson's [[TheHero Hero]], and Colonel ''Moran'' plays the BigBad to ''Holmes's'' [[TheHero Hero]].
* Mr. X the Mewtwo in ''FanFic/{{Pokeumans}}''. Upon going mad (or perhaps not), he declared the transforming Pokeumans an impure species and sought to remove them from the world, with a sidelight to global conquest while he was at it.
** In fact, for any ''Franchise/{{Pokemon}}'' based fan series the BigBad is usually either Mewtwo or Darkrai, in some form or another.
* Argath Iruvedla in ''Fanfic/WarriorsOfTheWorldSoldiersOfFortune'', an undead [[OurVampiresAreDifferent soul-consuming]] [[FantasticRacism anti-Norman]] megalomaniac MagicKnight. Believes that wiping out the humans would ensure a better future for the world itself, because he feels that he and the side he stands for is superior to humans.
* ''FanFic/TheWorldOfTheCreatures'' has the Conceptivore - a creature made up of thoughts that can turn the world inside a person's mind into an actual physical universe. It does this so it can eat the new physical version of the person's mind.
* The fanfic ''FanFic/BecauseImNotPopularIllTryToGoOutWithAHero'' pretty much has a rotating villains gallery, but the most recurring, and the one who causes the most trouble is ComicBook/NormanOsborn.
* In [[Manga/OnePiece One Piece]]: [[https://www.fanfiction.net/s/3510991/1/One-Piece-A-Smash-Adventure/ A Smash Adventure]], most of the Big Bads the Straw Hats face are villains from their own respective series ([[Franchise/SuperMarioBros Bowser in the Mario arc for example]]). But the GreaterScopeVillain instigating all of the events in the story turns out to be an organization formed from various video game villains, most of which are not even related to Nintendo. These villains are listed as below:
** [[VideoGame/MegaManX Sigma]]
** [[VideoGame/TwistedMetal Sweet Tooth]]
** [[VideoGame/FinalFantasyVII Hojo]]
** [[Franchise/StreetFighter M. Bison]]
** [[VideoGame/FinalFantasyVI Kefka Palazzo]]
** [[VideoGame/SuperPaperMario Dimentio]] [[spoiler:It turns out that he was the GreaterScopeVillain the whole time.]]
** [[VideoGame/FinalFantasyX Yojimbo]]
** [[Franchise/KingdomHearts Xemnas]] [[spoiler:Usurped by Dimentio.]]
* [[VideoGame/{{Touhou}} Touhou]]: [[https://www.fanfiction.net/s/5681268/1/Touhou-Journey-to-the-Smashing-Beyond/ Journey to the Smashing Beyond]] also follows this same concept from the one above. Most of the Big Bads in this story are new, with Sigma and M. Bison the only villains to make a return. The list of villains follows as below:
** [[VideoGame/{{Gex}} Rez]]
** [[VideoGame/MegaManStarForce Mr. King and the Crimson Dragon]]
** [[VideoGame/MarioAndLuigi Fawful]]
** [[VideoGame/KirbySuperStar Marx]]
** VideoGame/IMMeen
** [[VideoGame/FinalFantasyV Exdeath]] [[spoiler:He survives his duel against Youmu and returns as the TrueFinalBoss after Tabuu's defeat.]]
** [[Franchise/{{Castlevania}} Dracula]]
** [[VideoGame/FinalFantasyII Emperor Mateus]]
** [[VideoGame/SuperSmashBros Tabuu]]
* Played with in ''Fanfic/KataangIslandAdventure''. Sharpclaw the raptor often attacks the islanders...but it turns out he does so to [[spoiler:feed his isolated family]]. Once the situation calms down, Aang and Katara relocate him and [[spoiler:his family]] to the mainland.
** Played straight with Shen in the sequel.
* {{Fanfic/Weiss Reacts}} has Weiss' grandfather as the closest equivalent. He is the cause of the strife between [[FantasticRacism Faunus and humans]] in-universe and is the reason why Weiss has a DarkAndTroubledPast.
* [[http://www.fimfiction.net/story/91188/what-didnt-happen What Didn't Happen]] has Queen Chrysalis. ([[spoiler: the one from the future, not the one from the past]])
* [[https://www.fimfiction.net/story/255512/we-are-what-we-are We Are What We Are]] has Starshot, a time-traveling Unicorn from Equestria seeking revenge.
* Weavile from ''[[https://www.fanfiction.net/s/5954460/1/Total-Pokemon-Island Total Pokemon Island]],'' [[spoiler: though she goes through a HeelFaceTurn in ''World Tour'']].
** Hypno from ''[[https://www.fanfiction.net/s/6453506/1/Total-Pokemon-World-Tour Total Pokemon World Tour]]''.
* In ''Fanfic/YuYuGiDigiMoon'', there are a number of main villains throughout the stories:
** Season 1 (Wrath of Pharaohmon/Redux) has Pharaohmon.
** Season 2 (Invasion of the Rajita) has Kaiser Ghidorah.
** Search of the Kuiper Belt Senshi has The Neo Animamates.
** The Taiyoukai's Awakening has Demento and Kiryu.
** Summer Diaries/Special Edition has Zagato.
** Season 3 (Dawn of Chaos) has a shuffle of Big Bads. The Digidestined are facing Madoudramon and Valmarmon once he's revived. The Sailor Senshi faces Gamera. The Spirit Detectives faces Long and Arago once he's revived. The Duelists faces [[Anime/YuGiOh5Ds Professor Frank]]. Ultimately, the main villains are the Paradais duo: Sailor Charon and The Prophet/[[spoiler:Millenniummon]].
** Neos United has Chaos Magician Girl.
** The West Coasters has The Soujas and Neuromancer.
* ''[[http://www.fimfiction.net/story/237978/how-trixie-somehow-saved-hearths-warming How Trixie (Somehow) Saved Hearth's Warming]]'' has Leidr, who's buried the North Pole in snow and ice (it's a {{Homage}} to old school Christmas Specials) and is the one Vixen needs Trixie's help to stop. [[spoiler:He's also a mutant, sapient Windigo.]]
* ''FanFic/AuroraFalls'' has [[spoiler: Baat Torgal, acting CEO of the Torgaljin Corporation on 4546B.]]
* ''Fanfic/{{Marionettes}}'' begins with [[ImplacableMan Cover Story and Gear Shift]] as [[TheHeavy the main antagonists]], pursuing and trying to capture Trixie. However, it's made clear early on that [[TheMenInBlack their organization]] is far larger and they answer to somepony higher up. The true BigBad is Director Masquerade, the leader of the Stallions in Black, who takes over this role [[DiscOneFinalBoss after the two are defeated.]]
* ''FanFic/Zootopia2TheMovie'' has Dr. Mouser, a mad scientist mouse and leader of a massive gang trying to take over the city.
* In ''WesternAnimation/TotalDrama'' fanfic series ''Fanfic/MonsterChronicles'' Cedric usurps this position from Alejandro, becoming the main antagonist of the second half of Total Drama World Tour and of the story as a whole.
* ''Fanfic/ACertainMagicalFriendship'': In ''Context_SHIFT'', Nightmare Moon, whose Eternal Night would cause TheEndOfTheWorldAsWeKnowIt by making the Earth too cold to live on.
* ''Fanfic/PersonaTheSougawaFiles'': The main villain is Nobuyuki Itou, the leader of the biggest crime syndicate in the city. He seeks to take over with the power of Shadows and rule over it with an iron fist, leading the city towards a "new age".
* ''Fanfic/ISawGraysonKissingSantaClaus'': For the entire story, Damian Wayne is convinced it's Santa. In reality, it's his older brother Jason Todd, who had the opportunity to correct Damian about Santa and instead egged his younger brother on for no other reason than screwing with the rest of their family.
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