A few Mats-related ones:
The Replacements' "Here Comes A Regular" / Bob Dylan's "Knockin' On Heaven's Door"
Paul Westerberg's "My Dad" / Bob Dylan's "Positively 4th St." (not a coincidence at all, evidently; file it under, um, homage/tribute)
Tommy Stinson's "Light Of Day" (right before the "you're so beautiful at night" verse) / The Flaming Lips' "Feeling Yourself Disintegrate"
And of course there's "Gary's Got a Boner" / "Cat Scratch Fever", but they even credited Nugent on the
Let It Be liner notes.