* ContinuityLockOut: If you only get comics of one type (I.E. Sonic Universe only, Mega Man only, Sonic the Hedgehog only), then you'll have no idea what's going on. Helped/rectified by the volume releases, which combines the chapters from the different volumes.
** If you haven't played the games of one series, you'll probably be even more confused. The crossover is clearly written for fans in mind. It's even more confusing for newer Mega Man fans in particular, as the timeline jumps from in-between ''VideoGame/MegaMan2'' and ''VideoGame/MegaMan3'' to after ''VideoGame/MegaMan10'', meaning context on why Break Man goes by Proto Man now, who is Bass and all the future Robot Masters will be inevitably lost on them.
* FanPreferredCouple: Because of this comic, Robotnik/Wily is one of the most popular ships ever for both fandoms.
* FandomRivalry: Some ''Mega Man'' fans weren't pleased at how the ''Sonic'' cast overshadowed the ''Mega Man'' cast, while ''Sonic'' fans were quick to argue the opposite.
* HarsherInHindsight: The Off Panel strip of Sonic #250 has Mega Man encouraging readers to get his comics as well. It may not be quite as humorous when you realize that, had the crossover not taken place, the Mega Man comic would likely have been cancelled before getting even as far as it did, and that Sonic’s comic wouldn’t have long to last either.
* HilariousInHindsight: This crossover isn't the last time [[VideoGame/SuperSmashBros Sonic and Mega Man would appear together...]][[note]](Just in case the page image for ''AndTheFandomRejoiced/SuperSmashBros'' ever gets changed, [[https://static.tvtropes.org/pmwiki/pub/images/screen-3small_9156.jpg here it is]].)[[/note]]
* HoYay: Dr. Wily with Dr. Eggman. Not only are they buddy-buddy in the comic proper, the "Evil Friends Forever" variant covers go out of their way to show the two men just having a jolly good time!
** [[http://scans-daily.dreamwidth.org/4308932.html#cutid1 scans_daily]] seems to think this is going to end in the best comic book wedding in years.
** In ''Sonic the Hedgehog'' #248, Eggman acts like a jealous girlfriend when first hearing about Wily's history with Doctor Light, with Wily having to reassure him that while Thomas may be brilliant, he's nowhere near as brilliant as the two of them are.
** The solicitation for Part 8 even refers to their relationship as a "bromance".
* HypeAversion: There's bound to be this, especially since it was critically acclaimed.
* IKnewIt: [[spoiler: Quite a few fans guessed correctly that Robotnik and Wily were going to have a nasty falling out.]]
* MemeticMutation: "I let Sonic into my special zone!" [[labelnote:Explanation]] In a panel where Dr. Wily is explaining something to Dr. Eggman, Eggman spits out his drink in response to what Wily said. A fan edited the dialogue in Wily’s speech bubble to make it seem like Eggman was reacting to something dirty.[[/labelnote]]
* MoralEventHorizon: [[spoiler: Dr. Eggman and Metal Sonic cross it by trying to toss Dr. Light out of the Skull Egg to his near death. Even Dr. Wily thinks that they went too far and it cracks their otherwise powerful new friendship.]]
* RootingForTheEmpire: Wily and Robotnik are very popular villains, and given how well they worked together, some readers wanted them to win.
* TakeThatScrappy: Sonic, when fighting Metal Sonic, makes a nod to his [[OneWingedAngel Metal Overlord form]] from ''VideoGame/SonicHeroes'' as "that stupid dragon-thing." Ian Flynn, the writer of this series, made it clear in an interview that [[http://www.sonicstadium.org/2013/05/sonic-stadium-interview-archie-comics-ian-flynn/ Metal Overlord is one of his least favorite Sonic characters.]]
* TheyWastedAPerfectlyGoodPlot: Teaser images for the crossover implied [[TheRival Bass and Shadow]] would be teaming up, but in the actual crossover, they are never shown meeting at all.
* VanillaProtagonist: Mega Man is written as generically heroic and hesitant compared to the snarky, self-assured Sonic.
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