"Super Best Friends" was removed from the South Park website and Netflix instant streaming because it included a depiction of Muhammad. Later, in South Park: Cartoon Wars: Part 1 (2006), South Park Studios created a similar plot with Family Guy (1998), when really, it happened to South Park in real life.
Meanwhile, at the White House, after the scene in which the Blaintologists are instructed how to drown themselves, George W. Bush is shown looking down and commenting on the situation. Before this scene ends, his next door neighbor Larry pops in and says "Hey George! What's going on?". This is a reference to That's My Bush! (2001) created by Trey Parker and Matt Stone.