1001 Video GamesThe N64 version of Paper Mario appears in the book 1001 Video Games You Must Play Before You Die by General Editor Tony Mott.
- The Koopa Brothers are based on the Teenage Mutant Ninja Turtles.
- At one point in the game, a whale says "They really should call you Doctor Mario"- a reference to another of Mario's classic roles.
- In a reference to the Nintendo 64, the number 64 is prominent in the game. Instances include the name of the train, the name of the bar near the port, and the number of Star Pieces that can be obtained from Chuck Quizmo's quizzes.
- One entry in Luigi's secret diary reads, "I wish I had my own game... with my name in the title." Another reads, "I'm terrified of ghosts!" These are references to the Nintendo Gamecube title, Luigi's Mansion.
- February 2006 (Issue #200) - named #141 out of 200 of the "Greatest Games of Their Time"