The mutant metaphor and the X-Men in particular are supposed to be about embracing your differences and making them work not just for yourself, but for the greater world. Considering X-Men like Rogue and Cyclops
have on occasion transcended their 'limitations' to find control over their powers(when the narrative briefly breaks free of their played out tropes), shows that with the right amount of training(and/or telepathic/psychsomatic coaxing) mutants can own their individual expressions[of the x-gene] and become heroes.
Maybe it's the influx of the number of mutants in general/particularly extreme physical mutations that have emerged since the Morrison era that have highlighted this conundrum[of whether or not mutations should be chemically/biologically suppressed]. This deconstruction of the foundation of the franchise has obviously created fractures in the fan-base.
Before that, you had someone like Nightcrawler start out being attacked by a mob for his looks, and having to slowly but surely come to find peace in his appearance(that Bolton/Claremont backup issue with him and Logan in Salem Center is a classic), and revel in his capacity as a hero his powers(looks and all) bestow upon him. Such a metaphor is analogous to any number of situations where a real person's 'otherness' has to be claimed and emboldened for them to carry on in life, as opposed to rejecting their 'otherness' to fit in with the majority.
If you have mutants like Glob or Rockslide or Chamber reject their x-genes for the sake of ease and conformity, is that really a heroic trait? Chamber, for example, had a great storyline in Gen X(full of many odd mutants) where he went from abhorring his power to eventually becoming a huge powerhouse, capable of taking on Omega Red by submerging himself in a puddle(don't have to breath when you're a psionic plasmoid being...), or even moreso, when he dispelled D'Spayre in a huge energy burst, and reformed his own body from scratch(only to bust open his face again. Psychosomatic self-sabotage instead of just being 'his power'? Synch's face didn't blow off when he used his power...).
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Just taking a cure seems a cheap ploy. Kids need to learn the world is hard, it sucks a lot, and you have to find a way, even when it is not easy. The cure is a cop out(narratively).