* AlasPoorScrappy: [[spoiler:Flay, after her emotional breakdown and ensuing RedemptionEqualsDeath.]]
* BrokenBase: It is a Gundam AU series, after all.
** In the HD Remaster, [[spoiler:Nicol]]'s death was retconned to make it appear largely accidental. In the original, he attacks, his target counters, and he's killed. In the remake, he attacks, his target dodges, and his attack carries him into his target's sword, which kills him. Here's [[http://www.youtube.com/watch?v=fhpmGzNK0aI a comparison video]]. On the other hand, Kira's reaction is certainly a reflexive action in both versions (he's trying to avoid an attack) the only thing that really changes is the position of the weapon. The intent is not changed to make Kira look less guilty, since even in the original situation Kira was not deliberately attacking Nicol.
* BaseBreaker: Flay is certainly a polarizing character.
** For some, Lacus, given her status as an idol singer, which some fans feel doesn't fit really well with the series' tone. Her turning out to have a large political clout while being a ''teenage'' idol singer also pushes SuspensionOfDisbelief a little thin even though such role is preferred over an idol.
** AmericansHateTingle: Not so much in Japan, where she's generally well-liked. Which is ironic since the director had actually thought she'd be the type of character to appeal to Western audiences, but things ended up reversed.
* ComplainingAboutShowsYouDontWatch: Probably gets the most flak (not counting Gundam SEED Destiny) from UC fans than any other series, and most of them will readily admit they have never watched an episode of it.
* CompleteMonster: Muruta Azrael. [[FantasticRacism Racist]]. [[HeManWomanHater Misogynistic]]. Condescending. [[SmugSnake Arrogant]]. Spiteful. [[FinalSolution Wants to murder every Coordinator that breathes in order to protect the Naturals]]. Only wants to defend the Naturals from an ideological standpoint, and [[WeHaveReserves cares little for individual lives]]. Uses [[PsychoSerum drugs]] to turn children into brainwashed {{super soldier}}s and send them into combat. Classifies said children as equipment and considers them expendable. Basically, Azrael is every negative human emotion imaginable, all wrapped up in [[ManOfWealthAndTaste an expenisve blue suit]]. Without a doubt the most evil character in the series. Made ''worse'' by [[NobuyukiHiyama how childish]] and [[Creator/AndrewFrancis friendly]] his voice sounds. Even [[OmnicidalManiac Rau]] [[NietzscheWannabe Le]] [[CharClone Creuset]], [[spoiler:who wants to [[ApocalypseHow wipe out the entire Earth]]]] doesn't seem quite as bad.
** In short [[StartOfDarkness flashbacks]], it's revealed that his overwhelming hatred of Coordinators stems from the bullying he received as a kid by them.
* DeaderThanDisco: Seed's success spawned a [[MobileSuitGundamSEEDDestiny sequel]] and a [[GundamSEEDAstray manga spinoff series]], and even started talks that the CE timeline could become the new UC. However, a planned movie to wrap up the saga is in DevelopmentHell, making creators and fans give up on the saga and move on to ''{{Gundam 00}}''. Today, if you ask Gundam fans of their opinion of Seed, you will get plenty of contrasting responses, and you certainly won’t find many fans of Destiny.
** Though the new HD remastered version of Seed that recently came out ''may'' have changed that.
* DieForOurShip: If you like Kira/Lacus, Flay is a rapist whore. If you like Kira/Flay, Lacus is a MarySue. ''There is NO middle ground''.
* DracoInLeatherPants:
** Muruta Azrael. Some fangirls either downplay or handwave his atrocities in the show because he's so pretty and hot.
** Shani, Clotho, and Orga get the same treatment. Yes they're SlaveMooks forced into the war by Azrael, but that doesn't make them any less [[SociopathicSoldier vicious]] or [[AxeCrazy insane]].
** Do we even need to bring up [[OmnicidalManiac Rau Le Creuset]] and the leather pants fangirls give him?
*** In the case of Rau and Azrael, people that hate the show also love them because they desired genocide and said haters are of the opinion that Cosmic Era is a horrible world that deserves for everyone in it to die.
* EnsembleDarkhorse: Although being TheFaceless, TheVoiceless, and a bigger SacrificialLamb than everyone else put in the series together, Rusty Mackenzie has a bigger fandom than you'd expect. [[AllThereInTheManual Supplementary materials]] have helped a lot, revealing him to be a friendly guy who was the only Redshirt of the Le Creuset team who didn't have a parent on the PLANT ruling council.
* EvilIsCool: As the show's resident CharClone and MalevolentMaskedMan, everyone knew Le Creuset was going to be cool. Then the reveal comes in, and he turns out to be not only an AcePilot and a total {{Badass}}, but an impossible combination of Char, [[StarWars Emperor Palpatine]] and [[SilenceOfTheLambs Hannibal Lecter]]. Muruta Azrael also gets this treatment, both from fangirls who [[DracoInLeatherPants give him leather pants]], and others who find that his enthusiasm, [[LaughablyEvil dark sense of humour]], and status as a CompleteMonster with [[AttentionDeficitOohShiny ADHD]] make him a lot of fun to watch.
* EvilIsSexy: The fangirl opinion of Azrael. Feel free to be ill.
* FoeYay: Kira and Athrun of course getting this for being childhood friends turned into enemies. The FoeYay disappears in the second half though.
* HilariousInHindsight: Fllay hating the genetically-modified Coordinators. Her [[TabithaStGermain English voice actress]] goes on to voice the genetically engineered super-soldier [[Anime/MobileSuitGundam00 Soma Peries]].
** [[Creator/HiroYuki Clotho's Japanese voice actor]] dubbed [[WesternAnimation/SouthPark Stan Marsh]] for a while. Can you now say [[spoiler:[[TheyKilledKenny OH MY GOD! THEY KILLED CLOTHO!]]]] at the end of the series?
* ItsTheSameSoItSucks: This series is the AU series that is the most like the UC shows, due to the similarities between the Earth Alliance/ZAFT and Federation/Zeon conflicts, which might be a factor into why it's a frequent target from UC fans.
* LoveToHate: Rau Le Creuset, who is incredibly popular due to his [[MagnificentBastard brilliance]], [[{{Badass}} badassery]], and [[BreakingSpeech ability to give a speech]].
* MagnificentBastard: Rau Le Creuset fits this trope incredibly well. He does have a VillainousBreakdown but not much of one, goes out with a smile, and most importantly is a fine ManipulativeBastard and {{Chessmaster}}. When you [[spoiler:talk the world into self-destruction, manipulating a pair of ''very'' high-functioning {{Smug Snake}}s in the process, you count]].
* MisBlamed: As mentioned many times on this page, many of SEED's detractors take Destiny's flaws and put them onto SEED instead of focusing on SEED's own flaws. In fact, even though there were a lot of changes in production just like Destiny, they improved the overall quality of the series. Not that the FanDumb will listen when you bring this up, of course.
* MoralEventHorizon:
** It's easy to lose respect for Rau Le Creuset [[spoiler: when he nonchalantly uses his [=DRAGOONs=] to kill Flay Alster, who had by this point redeemed herself.]]
** And then there's Patrick Zala [[spoiler: shooting Athrun]]. And pretty much everything Azrael does, most notably using PsychoSerum to turn kids into {{Super Soldier}}s, and using nuclear weapons as though they were going out of style. Captain Sutherland and the Earth Forces as a whole crossed it after the incident at JOSH-A with the Cyclops system.
** Depending on who you ask, some members of the fanbase feel that Yzak Joule crossed this when he [[spoiler:shot down that shuttle]]. Even taking what he thought was going on into account, he still believed he was firing on fleeing soldiers, a less than admirable act. This is possibly the reason why in ''VideoGame/SuperRobotWarsAlpha'' 3, that scene was modified and the civilian shuttle was shot down by random ZAFT pilots, rather than Yzak.
* NeverLiveItDown: If fandom is to be believed, then Kira's a bad pilot and Flay's an irredeemable bitch.
* NoYay: It isn't hard to interpret [[CompleteMonster Azrael]]'s interactions with [[SergeantRock Natarle Badgiruel]] as an attempt at hitting on her. {{Squick}}!
* OneSceneWonder: The [[AllYourPowersCombined Perfect Strike]] in the HD Remaster. Only appears in two episodes (the Battle for Orb) and is never seen again (despite being edited into the 5th opening).
* RootingForTheEmpire: Some fans ended up rooting for the Earth Alliance because of the insane disparity between the kill ratios between the Alliance and ZAFT. Especially since many sympathetic POV shots indicate that most of those poor Earth Alliance bastards getting killed are just doing their jobs at the behest of raging bigoted lunatics instead of being raging bigoted lunatics themselves.
** The fact that the EA soldiers and pilots are also all normal people while ZAFT is entirely made up by what the show directly states to be genetic engineered super humans further enhances this feeling. It also doesn't help that the first high-ranking Earth Alliance official we really get to know, [[ReasonableAuthorityFigure Admiral Halberton]], was a pretty cool guy who [[WouldNotShootACivilian shot down Natarle's suggestion that they conscript Kira into the military.]] He ended up dying tragically with his command, the 8th Fleet which was completely wiped out except for the ''Archangel.''
* TheScrappy: Flay Allster, [[BaseBreaker for those who don't see her as a]] JerkassWoobie. Her manipulation of Kira combined with her blaming him for her father's death, her racism, her bitchy personality, her treatment of Sai, and her general uselessness make her a pretty difficult person to like.
* TearJerker: [[TearJerker/MobileSuitGundamSeed See the page and make sure you have a tissue with you.]]
* TheWoobie:
** IronWoobie: Go ahead life. Torture Kira. He'll get over it, eventually.
*** Athrun Zala can also be considered this. Lost his mother in a nuclear strike, has to fight his long lost best friend, [[spoiler: watches two of his closest friends and allies die]] due to his hesitation to fight Kira, has a [[spoiler:GeneralRipper]] for a father, and is too socially arkward to emote or channel any of this grief until it boils over the top and he breaks down. Yet, he still manages to be possibly the best pilot in the series.
*** If you're charitable to Lacus, she fits in like a hand to a glove. She's sheltered, ultra naive and kind of a PuritySue -- but when the chips come down, she does her best to gather her resolve and do what she can to help. Only once she breaks down, and that's when [[spoiler: she cries in Kira's arms while telling him about her dad's death.]]
** JerkassWoobie: Flay Allster, especially once she has her HeelRealization and tries to redeem herself. On one hand she's a self-absorbed, prejudiced and flawed FilleFatale who's hellbent on revenge and manipulates the hell out of Kira. On the other, she's also a desperate girl who pretty much lost ''everything'' and barely knows how to handle herself in the world until her CharacterDevelopment kicks in.
* TheyChangedItNowItSucks: The Remastered version is by and large the same, but there are small touch-ups and additions of scenes here and there. One notable instance is in episode 36 which adds a shot of [[CallForward Shinn and his family]] trying to flee the fighting. Probably the bigger change is in the ending themes: the first ending theme was remade and sounds somewhat different, while the original 2nd ending theme "River" by Tatsuya Ishii is omitted entirely and replaced with a new song by [[Music/YukiKajiura FictionJunction]]. Predictably, some fans of the original run have reacted much in the same vein as "Han shot first."
* ViewerGenderConfusion: Tons of viewers thought Nicol was a girl based on his looks, voice, and gentle mannerisms. If Youtube comments are any indication, he's STILL being mistaken for a girl over 10 years after the series aired in the Remastered episodes.
* XMeetsY: The beginning of the series looks like ''MobileSuitGundam'' meets ''GundamWing''.