Culture Equals Costume: Every time the beret-wearing character appears, Mike and the bots either sing something in French (e.g., 'Alouette'), or utter a phrase in French (such as "Vive la Résistance!").
Intoxication Ensues: As part of her Mad Science, Pearl doses the 'bots with hallucinogens, and Mike uses a screen to see what they see. Crow misidentifies Mike's Milky Way for a Snickers bar and freaks out, while Servo sees the same distorted, gibbering nightmare he sees every day. Crow is also surprised to learn that Mike isn't a clown.
Before the final letter shows up, Servo reads the title as Future Wax. Which makes about as much sense as the actual title, honestly.
When Sister Ann is writing the AB Cs on the chalkboard, Servo predicts she's trying to write the word "ass."
Servo: Ass— asswi— assho—
Crow: It's not even ass, Servo!
Ironic Echo Cut: Taking a cue from the movie, Mike and the 'Bots call Pearl to thank her for not killing them, interrupting her attempt to shoot the SoL with a missile. They feel quite betrayed afterward.
Retirony: After one of the dinosaurs is killed early in the movie.
Mike: He was three days from retirement! NOOO!
Shout-Out: Crow's Droppy the Water Droplet is very similar to his Willy the Waffle (all based on Coily the Spring Sprite from A Case of Spring Fever.)
Take That: When a couple of kids are shown playing The Beautiful Game, Mike comments that soccer is the only thing more boring than this film, and that the last thing he wanted to see was soccer in the film.