When Bart goes missing (he is trapped in a secret underground bunker), Sideshow Bob attempts to get Milhouse to reveal his location.
- Blatant Lies: Sideshow Bob's claim that he never heard of Bart before is disproven by his Die Bart, Die tattoo.
- Continuity Nod: Sideshow Bob still has the Die Bart, Die tattoo from "Cape Feare".
- My Country Tis of Thee That I Sting: Burning fuel while sitting down is something Homer considers the American Way.
- Nature Tinkling: Bart discovers the underground bunker after peeing in the woods.
- The Only One Allowed to Defeat You: Sideshow Bob can't stand the notion that Bart is dead without him being responsible for it.
- Rake Take: Sideshow Bob tries to kill himself by stepping on a rake several times.
- Time Skip: After the climax, there's a skip to a time when an elderly Sideshow Bob is living in a lighthouse.
- Too Dumb to Live: Sideshow Bob's therapist. After Sideshow Bob stabs him with a scissor, he wonders why he keeps giving those to his patients.
- Two-Keyed Lock: The system that activate the missile requires two keys to be turned at the same time. Sideshow Bob manages to stretch himself so he can turn one key with his hands while he turns the other with a foot.