Actually, South Park is pretty nice to Christians, Jews and Muslims when compared with shows like Family Guy and even The Simpsons. Jesus and God are depicted as pretty cool characters from any episodes I have ever seen (which I think is pretty much ever episode from the first ten seasons as well as a few later ones). Cartman's constant expression of hatred for the Jews is really more making fun of rampant antisemitism in American (and yeah, deny it all you want, but it is there). The show takes kind of a believe what you want, just don't give other people a hard time about it, and don't be a dick about it stance. However, it has ripped Mormonism and Scientology pretty badly, but only really by being brutally honest about them. It got a bit harsher on Scientology with the chef episode, but only because they were given a hard time about it their first Scientology episode. They even had an episode ripping on atheists, and they are constantly ragging on liberals.

So, if you watch the Scientology episode that pissed Hayes off to start with, it is actually a really accurate primer into Scientology's beliefs, which shows what a joke they are, which is obviously why the Scientologists, Hayes included didn't like it so much.

I am sorry to hear of the guys passing. Man, he and Bernie within a week from each other... I expected both those guys to be around a lot longer.