re: I don't see how you can incorporate all of the xmen into the marvel universe

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I just don’t think t works because the X-men and one of their main villains magneto are entirely based on anonymity in a society that doesn’t accept mutants or enhanced individuals. You can’t habe people hate mutants but love Thor and captain America.

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That's what the Civil War storyline was about, no?

Anyway, I agree with Freek that Singer kind of pigeonholed the X-Men into one storyline that he liked and tried too hard to make it realistic. It cut out a lot of the fun fantasy stuff. Yeah, the government might have problems with them, but people with their powers can do a lot off the grid too. In the comics they had years of storylines premised on the idea that they were basically underground and unknown to the public.