I think it would cause a shitload of trouble. Of course you may find a group that has no issue with it, I think you could find a group that enjoys detailed sexual assault scenes, overtly racist themes and ideas and scenes playing out, torture and dismemberment scenes, etc.
I am not saying the mere idea compares to the other things, but in a whole lot of people's minds, it will be on par with the most utterly offensive thing you could think of. Call me a prude, but though I like to keep themes of games adult and for people with critical thought, I dont see a real payoff in fun or game experience in trying to come up with one of the most offensive things to some people I could imagine.
If your plan is to present this to a group of people you know well, I guess I am with HappyDaze, and present the idea before running with the game and see where they stand. As a published thing, well, good luck. I personally would not want to see if I could push a few zealot christians to carry out a crusade (and I mean the middle ages kind, not the jack chick kind).