I can never actually remember what shows I saw during a given year, and I probably only see a dozen or so. I can't imagine how some of you keep up with all you say in your head.
Let me think...
Wilco, 9:30 Club (was that this year?)
Old 97's, Tractor Tavern
Fleet Foxes at Black Cat (first time on mainstage)
Nada Surf, twice at 9:30, once at Bumbershoot
Band of Horses, Bumbershoot
Drive By Truckers, 9:30 Club
Shearwater, Millenium Stage
I think those are the ones worthy of a "best of" list for me.