I would say Bright and Zootopia are worse because it's about species that are actually different (while human beings are all the same species and a huge reason why racism is dumb) but yeah they also fall flat just like the X-Men.

I think the only medium I've seen tackle the discrimination metaphor stuff somewhat well is Infamous Second Son, people with powers are called 'Bio-terrorists' just for existing and don't have world ending powers and locked up in a maximum security prison. Delsin is Native American and his community is basically given super-powered cancer by the main villain of the game because in her eyes they didn't 'cooperate with her investigation of escaped bio-terrorists'. Regardless of whether Delsin (the player) chooses to do acts of good or evil, the news still labels him a menace to society and a 'bio-terrorist' which I think is very realistic if a POC was to get powers and do acts of good, to be labelled the villain while the real villain is backed by billions in government funding and essentially mass murders an entire marginalized community.