That's really important. Marvel's business model for mutants is to say that they are hated and feared. No matter that there are other super-powered individuals, aliens or what have you, there has to be a distinction between mutants and everyone else. Where once the X-Men and other super-heroes had a pretty cordial if not friendly co-existence and the X-Men actually had human friends, that began to change. The suspicion and hatred towards mutant grew to the point that you rarely saw humans who were actually supportive of them. Then we started getting the extinction era of events that a previous poster documented so well. This all proved very successful as a business model.
The question becomes, do we as readers want to return to the premise of mutants and human working to create a world where they can not only co-exist but actually be friends? There was a time when this was actually happening. Or, we do want mutants isolated from the world but thriving(Krakoa or something similar)? Or can Marvel do both?