Love the "you don't rape in self defense" line. Because that pedestrian's legs that you're running over certainly deserved it, that dumb bastard getting in your way, on the sidewalk of all places! Those civilians in MW2? Deserved it, they were Russian, and therefore all terrorists.
The reality is that games are maturing, and with that, they handle more... controversial subject matter, such as innocents getting injured/killed(or raped). However, American society has not matured very much in relation to anything sex-related. If a penis or vagina is involved, and it's a game, some group of assholes is gonna start bitching. We as humans also still have a notion that women are weak and vulnerable, and must be protected, so a game with such horrible treatment of a woman would cause outrage galore.
To be honest, most game devs probably couldn't handle rape very well, and there'd be a huge media shit-storm. I mean, the sex in ME was consensual, and that riled a lot of feathers, imagine "rape simulator" accusations. Then again, how well is murder and war handled? Not very. It's glorified and human life trivialized, yet the outrage is nothing compared to a virtual rape.