Dottie's true blue cafe very good but can be crowded...lines on weekends particularly -- coffee and pastry in Union Square at Emporio Rulli with in or outside tables
IMO Canteen is the BEST first choice. it's Chef Dennis Leary's tiny lil spot next to the Commodore hotel and the food is awesome. I've also enjoyed Cafe de la Presse over by the dragon gate into Chinatown and next to the Hotel Trident;)