I have the entire episode with uncut audio, no raw audio bleeps. The video however still has censored boxes over Muhammad and i'm gonna take a guess that South Park Studios did this as an in-joke.

I'm as anti-censorship as any one person can be but after hearing the speech at the end, i'm not surprised Comedy Central censored it, in fact i'm surprised they allowed this to air at all.

EDIT: The commentary on the DVD & Blu-Ray is censored too, I bet we'll never get that in uncensored form.