Last time we were in Chicago we went to the Map Room (a favorite), Revolution Brewing (very good), and Haymarket ( this one had some excellent beers and food, but what is up with all of the big screens?).
Hopleaf is good, but pretty far north. My wife does not vote for Piece, as the pizza is not that good and the best beers are always out when we are there.
Owen and Engine has gotten some good write ups.
We enjoyed Publican for a lunch, and it is along the Gastropub lines, but more Gastro than Pub.