One of my personal favorite breakfast joints is the Bongo Room in Bucktown.
1470 N Milwaukee Ave, though the wait can easily be 1 hour.

One of my favorites is the Breakfast Burrito its a cilantro tortilla filled with scrambled eggs and guacamole and served with melted cheese.

The pancakes are phenomenal, this season they serve white chocolate & macadamia nut pancakes in addition to caramel & banana pancakes.

The coffee is very good and they serve truly fresh squeezed juices.

http://www.bongoroom.com/ (Although the posted menu is three years old).