MAD: One sketch features Mickey Mouse as an exterminator, and the Mouskewitzes are among the mice that he captures.
The Simpsons: At one point in the episode "Moonshine River", Homer mentions Fievel.
Tiny Toon Adventures: The episode, "Starting From Scratch" is a homage to the film, only done with fleas instead of mice. Flio's song, "Fur Fur Away" bears a striking, deliberate similarity to "Somewhere Out There". Steven Spielberg worked on both Tiny Toons and An American Tail, which may explain the similarities between the episode and the film.