Scrubs has a lot of good episodes that kind of flow together:

Season 1: My Occurrence/My Hero

Season 3: My Catalyst/My Porcelain God, My Screw Up/My Tormented Mentor

Season 5: My Cabbage/My Five Stages, My Lunch/My Fallen Idol

Season 6: My No Good Reason/My Long Goodbye/My Words of Wisdom

That scene at the end of My Lunch was one of the best.