I think I did miss the sarcasm on my first read-through, but I am thoroughly fascinated by your interpretation of FMAB.
First off, it's representation of women is some of the best in anime, if not all of pop culture. Female engineers, women in the military, mothers who are depicted as strong and capable, and a woman who can't have kids and is not looked down on for it are just some of the female cast, and they all have *gasp* individual personalities. Compare that to Marvel, whose female characters range from overpowered and cocky to sexy badass. Riza, for example, can be emotionally vulnerable and even have a man be the center of her motivation without her ever being portrayed as inferior or emotional for caring about someone.
It also does a great job of breaking down the effects a genocide can have on larger society and the people it happened too, in addition to the steps it takes for reparations and to rebuild and restructure exploitative systems to prevent it from happening again. We see the ravaged communities of Ishvalans, and rampant xenophobia among the Amestrian population. It's also really fucking bold of you to suggest that this is a bad depiction of genocide considering the author herself based it off of the genocide of her OWN PEOPLE, the native Ainu people in Hokkaido. I think out of anyone, a person who is a generation or two removed from a genocide would be the right person to speculate on how systemic reparations could be made.
As far as disability representation goes... there are a lot of disabled characters in FMAB and the majority of them did not recieve their disabilities via divine punishment nor did they "cure" them. I'm generally not a fan of the "disability as punishment" trope but it's worth noting that for Ed the entire journey was about his brother. Automail was an inconvenience, but getting his limbs back was not his main goal and even then he still has his automail leg.
Aside from the whole "soul binding" thing, failed human transmutation could have been swapped for any real life accident caused by kids making a bad decision and the impact would have been the same. It's more of a "dumb kids fuck up and spend years fixing their mistake" story rather than a "the gods have enacted their wrath and we must atone for our sins" story. The boys grow and learn, and IMPORTANTLY they learn that death is a part of life and not something to be fixed, but something that makes life worth living in the first place.
Sorry I misunderstood your sarcasm! What was that about media literacy again?