* {{Anvilicious}}: Made worse by the argument that the comic can't even seem to decide what its Aesop even is.
* BizarroEpisode: In one of the crossover comic books, Comicbook/HowardTheDuck tries to register. Not because he supports the law: simply because he's too poor and cowardly to be running away from Iron Man, and simply wants to avoid trouble. But he got into the wrong waiting line, and renewed his driving license instead. When he found the actual place for registering, he was rejected: SHIELD is so tired of receiving reports about "the duck man from Cleveland" (the duck man driving a taxi, the duck man insulting hot dog stands, the duck man painting graffiti in bus stops, etc), that they made it an official policy that he does not exist, and all the reports are dismissed. He yelled that they can not turn him into an UnPerson just like that.
-->Agent: Of course that you are an unperson. '''You're a duck'''.
* BrokenBase: The debate over Registration itself can rage quite strongly among fans.
* CrowningMomentOfAwesome: [[http://static.comicvine.com/uploads/original/11/113883/2224545-reed_richards__earth_616__peter_parker__earth_616__civil_war_vol_1_7.png Amazing. Spectacular!]]
* CrowningMomentOfFunny: The Expanded Civil War hardcover features a script and behind the scenes comments with MarkMillar. The comments are both illuminating and hilarious at the same time.
* DesignatedHero and DesignatedVillain: ComicBook/CaptainAmerica and ComicBook/IronMan. Even now, in any given comic, which was which [[DependingOnTheWriter depends completely on who's writing]].
** In fact, near the end of the story Dr. Strange even mentioned that he couldn't step in because there really WASN'T a clear good and evil team.
** There was even one Iron Man comic during the civil war that had the two talk with each other, and neither of them could really decide who was right, because they both had valid points.
** Marvel's official stance is that Tony was the Hero and Cap was the Villain.
*** However many of Marvel's writers [[AuthorTract seemed to not have taken that view point]] and [[{{Anvilicious}} Tony was met with multiple difficulties]] after his ''[[PyrrhicVictory victory]]'', in most series outside of his own.
* DorkAge: Some felt Marvel would be better off disavowing the whole "fiasco".
** Which finally happened now that ''Dark Reign'' is over and the Registration Act has been abolished.
* EnsembleDarkHorse: Hercules. The popularity he gained from him beating [[FanNickname Clor]] with his own hammer got him his own series.
* FanNickname: 'Fuhrer Stark' for Tony Stark/Ironman. Alternately, the 'Iron Fuhrer' or 'Der Eisenfuhrer'.
* FetishRetardant: Maria Hill looked like some sort of nightmare in the first issue.
** She looked like some sort of nightmare for her whole behavior during this saga. Is it even certain to fans now whether she can be trusted?
* HarsherInHindsight: The opening event of the story is a disaster in suburban Stamford, Connecticut that involves the destruction of, among other things, an elementary school. Six years later, an elementary school in another Connecticut town, just one hour away from Stamford, was the site of [[http://en.wikipedia.org/wiki/Sandy_Hook_Elementary_School_shooting one of the deadliest killing sprees in history]].
** It gets even worse: just like Stamford was the impetus for the Marvel registration debate, Sandy Hook has become the tipping point for a debate on gun control.
* HilariousInHindsight: The one big player on the pro-Reg side who turned out to be a Skrull is [[spoiler: knocked out and impersonated by the half-Skrull, half-Kree [[YoungAvengers Hulkling]] during the climax]].
** In ''Marvel Knights: Spider-Man #2'', Spider-Man is told by Tony Stark the benefits of unmasking. When Spidey tries to refute, ''Cap backs up Tony's assertions.'' What makes this even funnier is that the issue is written by Mark Millar!
*** On the flip side of that is ''[[BatFamilyCrossover The Other]]'' storyline, which ran across all of the Spider-Man titles the previous year - After Spider-Man's supposed death, the New Avengers (Led by Captain American & Iron Man, no less) decide that they can't reveal Peter Parker is Spider-Man & have to create a cover-up for his death, because revealing his identity would result in Aunt May & Mary Jane being targeted by every lowlife with a grudge against Spider-Man. ''And that's exactly what happens after Spider-Man unmasks''.
** There is also [[http://mightygodking.com/index.php/2007/08/08/things-you-always-wondered-about-comics-revealed/ this]].
* IdiotPlot: A lot of the plot makes more sense if you assume the brains of everyone in the Marvel Universe have been replaced with fish.
** One of the What Ifs? averted this by having the situation resolved relatively peacefully. With a compromise between the two sides.
* LogicalFallacies: One of the tie-ins involved Sally Floyd asking if CaptainAmerica followed NASCAR, had a MySpace page, or watched Series/AmericanIdol. He responds by saying no. Floyd then accuses Captain America of being out-of-touch with modern America and he is stunned into silence. First of all, this carries UnfortunateImplications that American culture consists solely of race cars (mostly popular in just the Southern states), an online community (mostly popular amongst teens), and a TV show (based on a ''British'' show). Secondly, no one would be asinine enough to tell a politician that he or she was out of touch with America for not having a MySpace page so why would it matter to Captain America? Finally, considering Cap is a SuperHero, one would assume that he is [[CallToAdventure too busy saving the world]] to bother watching American Idol every night.
** There's another fallacy: appeal to popularity, where you declare that something is right or true because "most people believe it". It's also known as the "bandwagon fallacy". Basically, Sally Floyd decided that Captain America's cause was unjust because "most people would rather watch TV." Apparently, Floyd's reasoning was that as long as most people don't care what happens to innocent others, neither should Captain America. Ethics and truth, apparently, are to be decided exclusively by "majority vote."
** It also turns the series into something of an UnintentionalPeriodPiece, given that Myspace was soon supplanted by Facebook and ''American Idol'' has since seen a decline in its popularity.
* MemeticMutation: During the initial promotion for the crossover, Marvel released a pair of message board signature images reading either "I'm with Captain America" or "I'm with Iron Man". Within days, fans were creating their own versions by the dozens, and similar images are still being created for both Marvel and DC's {{Crisis Crossover}}s as well as things that have nothing to do with comics.
** There was also the [[TakeAThirdOption Third Option]]: "You're all f***** when [[PlanetHulk the Hulk gets back]]."
** To a lesser extent '''''THOU ART NO THOR!'''''
* MoralEventHorizon
** For the pro-registration side, it was the disaster of Stamford. Even if not personally involved, they do all this registration to prevent such a thing from happening again. Or at least minimize the chances for that.
** For Captain America, it was the moment when he saw that the whole fight was destroying the city.
** Spider-Man began having doubts about his side when Stark proudly showed him his Negative Zone prison, before outright switching sides after Tony Stark, Reed Richards and Hank Pym ''CLONE A GOD''.
** To Captain America, the Punisher crosses it when he just straight up ''murders'' Goldbug and Plunderer after their attempted HeelFaceTurn just because they were once criminals.
* NightmareFuel: Just think about the fact that [[spoiler: Hulkling was vivisected]] and his [[spoiler: organs were rearranging themselves.]] It might just be this Troper, but I had trouble sleeping after that.
* ObviousJudas: Did someone thought that Punisher would ''really'' follow for very long Cap's rule of not killing?
** In "What If Civil War 1", Iron Man died during the Extremis arc, and Captain America led all the heroes against the Registration act. The law was enforced by Gyrich, Hill, Jim Rhodes and their armies of Sentinels and mechanical Thors. Jim Rhodes negotiated an agreement with Captain America, but a traitor standing in the shadows told it to Gyrich, and they were both killed. Who was the traitor? Come on... as if you didn't saw it coming.
* OneSceneWonder: The crossover generated a big upswing in interest in [[IncredibleHercules Hercules]] (kicking off what would turn out to be a few very good years for him), in a series of moments that amount to about six pages.
* OutOfCharacterMoment: Less like a moment, and more like ''seven whole issues of'' '''''nearly everyone''''' ''acting out of character.''
* TheScrappy: Miriam Sharpe, Sally Floyd. The latter became the most hated character in the ''MarvelUniverse''.
* StrawmanHasAPoint: The whole arc had this problem.
** It was supposed to be a nuanced exploration of whether or not [[SuperRegistrationAct compulsory registration for superheroes]] was necessary to curb catastrophic mistakes and potential abuses of power. ''Both sides'' were supposed to have valid points (but supposedly supporting the Pro-Registration overall). Unfortunately, due to insufficient coordination between the writing teams of different books (as well as a ''serious'' difference in the skills of the writing teams -- the anti-reg side got '''Creator/JMichaelStraczynski'''), MarkMillar failed at making readers sympathize with the pro-registration side and both sides ended up looking like straw men, with the pro-registration side looking particularly monstrous. For starters, the SHRA criminalized the act of apprehending a criminal when you yourself are an average citizen, as well as SHIELD trying to arrest CaptainAmerica for refusing to join the pro-reg side and enforce the law, ''before'' it was actually signed into law. To make matters worse, the actual specifics of registration [[DependingOnTheWriter varied from book to book]]:
** In pro-reg books, registration was treated as a prerequisite to a superhero being a crimefighter. Supers were given the option of not using their powers, getting trained in using them properly and to establish that they were not a threat to themselves or others, and going to prison. If they did not want to fight crime after they were finished being trained, then they didn't have to, and there was no indication that they would be forced. It was just shown that a lot of people chose to fight crime because they had made friends with their fellow trainees and they felt like they should use their powers for good. However, the pro-registration side was still not sympathetic because Tony Stark and Mr. Fantastic were portrayed as being jerks, who felt like [[OmniscientMoralityLicense they knew what was best]], as well as committing some blatant crimes. But they were making excellent points throughout and [[TakeOurWordForIt if Mr. Fantastic's soothsaying math can be believed]], it was the lesser of a few evils.
** In anti-reg books, SHIELD [[MutantDraftBoard forcibly conscripted anyone who happened to have any kind of superpowers]] whether they wanted to fight crime or not, and the pro-reg heroes were {{Well Intentioned Extremist}}s. When {{Luke Cage|HeroForHire}} said he just was going to not use his powers and stay out of it, armed gunmen showed up at his door on midnight of the day the act went into effect. In ''[[ComicBook/AvengersTheInitiative Avengers: The Initiative]]'', kids recruited were told that they either join the initiative, get their powers taken, or go to jail. Cloud 9, whose power was a little cloud that could make her fly, was recruited, turned into a sniper and sent to killing missions, even though she never wanted to use her power for crime fighting. In addition, Stark orchestrated an attack on ComicBook/BlackPanther, foreign chief of state, because his wife (who had diplomatic immunity) refused to sign up. It was quite clearly a case of "work for us or else".
** There is also Sally Floyd, the straw news reporter who argued to Captain America that the ideals he represents had already died a long, long time before he did. Though it doesn't bode well for Cap, it may very well be a case of [[FamilyUnfriendlyAesop sad]] but [[TruthInTelevision true]].
* TakeThatScrappy: The side of Maria Hill won... but ''she'' did not: she was demoted to be the NumberTwo of SHIELD's new head honcho, Tony Stark. At least that's [[YouGetMeCoffee how it looks]] in the main title. In the Iron Man tie-in, she hands over the reigns to him of her own volition having realized that she was given power for the wrong reason. Many didn't think that was punishment enough for her.
** Many people must have thought this when the Cape Killers gave the MirandaRights to Sally Floyd and took her prisoner. Fortunately, they did not have any strong evidence to keep her there, so she's free to continue annoying all super-heroes. On the other hand, this somehow causes her to [[DefeatMeansFriendship switch to supporting the Pro-reg side]].
* TheyWastedAPerfectlyGoodPlot: Plenty, but perhaps most notably, the inference that Nitro's powers had only been as destructive as they were because of Mutant Growth Hormones given to him by [[strike:Stark Industries]] ComicBook/DamageControl boss Walter Declun, who gets [[spoiler:summarily executed]] by Wolverine. Notably, Logan was ''the only one'' who followed this particular thread instead of helping the others waste time finding culprits. [[spoiler: Declun actually survived and resurfaced in Spiderman.]]
* TrappedByMountainLions: Y'know what was going on at the same time as this event? Annihilation. Aka the event where Annihilus killed Quasar and the all of Nova Corps (except Nova himself), stole the Quantum Bands thus making himself invincible, then lead a Negative Zone army on a warpath, trying to slaughter all life in the ''galaxy''. This was a threat so big that almost every space superhero, villain, and alien race up to and including ''Galactus'' teamed up to stop it. Compared to that the events here seem incredibly pointless. Not to mention the Hulk was on his way back to rain holy hell on the superheroes. Lampshaded by a ''What If?'' Issue where Nova calls out Iron Man and Cap on wasting everyone's time like this when a ''galaxy destroying army of bugs'' is on the way.
* WhatDoYouMeanItsNotPolitical: Didn't help that writers of the tie-ins '''directly''' brought [[AuthorFilibuster politics into their writings.]]
----