EV Games - EB Games, a spinoff of Electronics Boutique that specializes in computer games.
Stuff to see in the store: games for the Q-Box, StarCraft, Warcraft III.
Triscotti - the Italian form for triscuit.
Comparison between Jack Nicholson at the end of The Shining and Cartman:
Battlestar Galactica references: When they were in bed, and Garrison sat up over Dawkins, music plays which is very similar to BSG music when the cylon-in-Baltar's-head scenes are playing. Then Garrison used her charms to persuade Dawkins into doing what Garrison thinks is the best course for mankind (getting rid of religion), just how Six-in-Baltar's-head does that to Baltar. Then the scene ended in wicked sex, cue the end of the awesome BSG-like music. Pretty much how all Baltar/Six-in-Baltar's-head scenes go.
Check out this comparison between 1970's era Buck Rogers in the 25th Century's Erin Gray and an officer in the second Atheist bridge:
Some part of the bridge of the UAA bridge look like they came out of Star Trek: The Original Series.
The crates in the battle between the UAL and the UAA seem to come straight out of the DOOM games, and the laser gunfight seems to come out of the opening shootout from Star Wars: Episode IV: A New Hope, between the Rebel and the Imperial forces.
The Uncyclopedia article and a site about the Flying Spaghetti Monster.
When Butters and Dougie return to Cartman's burial spot, the tree and rock are still there, but Butters fails to see them, and they are gone a few scenes later.
One could accuse South Park of ripping off the entire premise of Futurama, which has Philip J. Fry being cryogenically frozen for one thousand years just after midnight on New Year's Day, 2000, reawakening on New Year's Eve, 2999, in having Cartman freeze and being thawed in the future, but that premise has been done many times before Futurama. See the dyn below.
The opening credits to Buck Rogers in the 25th Century are copied here when Cartman freezes in the middle of nowhere and ends up being thawed in the 26th century.
"So it begins" is from The Lord Of The Rings: The Two Towers. Theoden says it at the beginning of the Battle of Helm's Deep.