The Hand That Rocks the Wheelchair - S9-E12
Trivia: The scene in Stewie's room when the duplicate Stewie appears in the machine (along with familiar sound effects and dramatic music) is paying homage to the Star Trek original series S1:Ep 5, "The Enemy Within".
A Picture Is Worth 1,000 Bucks - S2-E11
Trivia: As Peter and Meg walk, the walking music of The Flintstones is heard. Then the background of The Flintstones appears next to the Trump Tower.
Trivia: As Peter conducts a tour of reporters around the school, they come upon a scene in the hallway. He introduces the Hall Monitor X-L-K. It requests a hall pass from a girl, fails to recognize the pass, makes a second request, fails to see the pass, and opens fire, chasing the girl back to class. This scene was borrowed from Robocop (1987) when ED-209 was introduced, and had the same type of malfunction.
Road to the Multiverse - S8-E1
Trivia: When Stewie and Brian pop into the universe where they look like a real dog and baby, the controller Stewie has looks like a tricorder from Star Trek: The Next Generation.
Trivia: When Lauren takes Brian to the chamber to show him what she did, the corridor, the chamber, and the back-and-forth dialog about the experiment was directly copied from the scene in Star Trek II: The Wrath of Khan. Carol Marcus was taking Admiral Kirk to the Genesis Chamber.
Trivia: One of the kids at fat camp is Barry, Steve's friend from American Dad.
Trivia: The name Joyce gives as her real name is the name of one of the show's writers.
Trivia: When Peter falls out of the tree and ends up with his bottom lip over his head, this is an homage to Carol Burnett's classic comedy routine where she describes the best way for men to experience the pain of childbirth. She tells men to grab their bottom lip, and pull it over their head.
Blue Harvest - S6-E1
Trivia: When an explosion on the Death Star sends an Imperial stormtrooper flying, the stormtrooper lets out a Wilhelm scream.
Suggested correction: I'd say given that all Star Wars movies use the scream, it would be unusual for it not to appear.
Episode VI: It's a Trap - S9-E18
Trivia: When Luke is killing some guys by the pit, a Wilhelm screamcan be heard. It's the same time the scream can be heard in Return of the Jedi.
Trivia: The show is famous for its cutaway gags, but even in the uncut version of this episode, there is not a single one.
Spies Reminiscent of Us - S8-E3
Trivia: Peter says that he can't believe he is eating with two of the Ghostbusters. Whilst Chevy Chase was not in Ghostbusters, he was in the music video for the Ghostbusters theme song.
Episode VI: It's a Trap - S9-E18
Trivia: When Jabba is about to let Luke die in the pit, he says "Mi-La-Ku-Nis", who voices Meg, represented in this scene as the Sarlacc.
Family Guy Viewer Mail #1 - S3-E21
Trivia: In the superhero segment, all five Griffins get similar powers to those of the X-men. Stewie's telekinesis is similar to Xavier/Jean Grey, Chris' fire powers are similar to Pyro, Lois' super strength is similar to Colossus, Brian's speed is similar to Quicksilver, and Meg's nails are a reference to Wolverine's claws.