He references it in:
* "The One Where They're Up All Night" (Season 1) when he compares his relationship with Rachel to Michael Corleone's.
* "The One with the Holiday Armadillo" (Season 7) when he dresses up as Don Vito Corleone for a holiday party.
So, although not explicitly stated, "The Godfather" is a strong contender for Ross's favorite movie.