Murder has no place in a healthy society. Virtual murder, especially a gruesome one, is awesome (ask people about the best thing in Fallout 3).
A healthy society resents and detests war. War games (and movies) are one of the most popular genres.
Rape has no place in a healthy society. Why is it wrong in a video game while most other crimes are perfectly fine?
And don't give me the crap about the killing being about "survival" and/or "ultimate good goal". All the Grand Theft Auto games, where you rob people of their cars so you can take part in a bank robbery or a gang shoot-out in the middle of a crowded city (and get money for killing random people and blowing up random cars), any other mafia games where all the crimes you commit are for nothing but the personal gain of you or your boss, and every game where you have the choice to be the "bad guy" is supposed to be played by killing, stealing, cheating, betraying and generally being a criminal and an asshole for nothing more than your own personal benefit and enjoyment.
Also, has anyone actually seen the game Rapelay that started all this? I have, and for a non-japanese speaking person it's nothing but a 3D porn simulator. There is no physical abuse, just groping on the train and having sex in the park/public bathroom/bedroom. If the game didn't say "Rape" on the cover, you couldn't tell it apart from every other 3D sex game out there. So the only thing that makes it an "offensive" game is actually the context ? achieved entirely by textual information (in Japanese), and nothing but textual information. In movie terms, it's basically a mainstream porn movie that someone has changed the cover to say "rape" and added "he's raping her" in the subtitles. If "any sex advertised 'rape' is, in fact, rape", I feel sorry for our future.