Continuity mistake: Look carefully at the brochure Frank has about the Buffalo Chicken Wing festival, the building pictured is the same building as his daughter's school (seen earlier in the movie).
Suggested correction: While the buildings might look similar, they are different buildings. The school has 3 levels with rectangular windows with a pyramid top while the building in the brochure only has 2 levels of non-rectangular windows and more of a dome shape on top.
Continuity mistake: When Drix freezes the witness from the ship, he says it will take a few days to wear off. Not even a day later it wears off and the witness is back to normal and runs off only to be frozen again later.
Continuity mistake: When Thrax enters the Hypothallimis, he kills one scientist, he then attacks the other scientist wearing glasses. When he picks up the scientist's glasses, there is tape holding them together in the middle, but when the glasses land on the ground, there isn't anything on the glasses at all.
Continuity mistake: When Frank drops his egg, it is almost all clean, but when he gets it up, it is dirty.
Continuity mistake: When Thrax and his posse are hiding out in the Big Toe Garage, one of his lackeys is seen peeking out of the window. In the next shot Thrax is seen ripping the curtain from the exact same window.
Continuity mistake: When Frank is asleep and his temperature starts to rise after Thrax attacks the hypothalamus, he jerks in his sleep causing the half-eaten circus peanut on his pajama pocket to roll down and away. But then when he wakes up, the circus peanut is back on his pajama pocket.
Continuity mistake: When Shane is talking to her dad about going camping, when she stands up and says "I go where you wanna go..." you see a score ticker and "Oak 5 Sea 4" scrolls across. The shot changes and "Oak 5 Sea 4" scrolls across again.