A special 19-note melody, known as "Totaka's Song", can be heard when the Trail Mode screen is left on for 2 minutes and 10 seconds.
The Japanese version of the game didn't have a Story Mode save feature. For this reason, the option to erase Story Mode's save data is absent in the Japanese version.
Hitting the Spiders with an egg in the uppermost hut of the Jungle Hut level affects the instruments used in the music that plays during the level.
In prerelease footage of the game, a purple and brown Yoshi can be seen. They even appear in the intro. But for some reason, they were taken out of the game.
The newspapers in the background of the Jelly Pipe level say a variety of things, such as Luigi, Mario, Zelda, N64, Pikachu, Nintendo, Yoshi, and Nintendo 64.