The only movie that Scorsese ever made that I really liked was "The Departed" (it's also the only movie that Leonardo Di Caprio has been in that I liked).
Stanley Kubrick's "2001: A Space Odyssey" and "Full Metal Jacket" make him the winner in this comparison for me.
O/T: the best Director ever, however, has to be Steven Spielberg:
Duel, Jaws, Close Encounters of the Third Kind, Saving Private Ryan, Shindler's List, Minority Report, War of the Worlds, Munich and he had a very large hand in the best mini-series ever made... Band of Brothers.