Seamus' story of how he was made is a parody of Pinocchio.
When James Woods turns up dead, Peter says "criss-cross!", a reference to the Alfred Hitchcock movie Strangers on a Train.
When dressed in armor, Peter says "Go-go Gadget Skis!", a reference to the TV series Inspector Gadget.
When the group is carrying Joe up the stairs, Peter jokingly hums "Hava Nagila". This is a parody of the Jewish tradition of when at bar or bat mitzvah ceremonies or wedding receptions, those being honored get lifted on a chair to this music.
Carl makes references to the films Labyrinth, No Way Out, and The Great Outdoors. In the DVD extended edition, he also makes references to Hard Rain and Days of Thunder.
When the remaining group sees Tom Tucker as the murderer, Peter says "Tell that to Mike Judge!", a reference to the quote "Tell that to the judge!" and the creator of King of the Hill.
When Dr. Hartman pretends to attack Seamus, he imitates the music from Psycho.
The DVD extended edition features Seamus asking Dr. Hartman and Herbert if they'll still be friends the next day in class, parodying a scene from the film The Breakfast Club.