This is where the in-universe/out-of-universe distinction comes into play. From the reader's point of view, Cyclops came out of AvX squeaky clean, protected against doing anything really bad and with a massive presence in comics. We Wanda stans would have killed for the treatment Scott got.
Instead she was banished from comics for years, spoken of to this day as the greatest villain in the entire world of X-comics, and still hasn't been allowed back on the Avengers roster.
Sure, one or two characters in-universe have said nice things about her, but mostly she's still fighting to get back the ground she lost years ago.
And all because of something that was completely out of character for Wanda Maximoff, proud mutant who was out-and-public when the X-Men were working for the FBI and hiding their identities...
I don't think it's scary exactly, though I admit I sometimes find that people talk as though anything the oppressed do to their oppressors is OK, and one of the interesting things about mutant power as a metaphor is that it shows that power is not as evenly distributed as all that - even an oppressed person may have some power to abuse.
In the end though it's all harmless role playing. Someone who identifies with the mutants against the human oppressors isn't going to go out and lead a revolution.