This place[/url:368q3nnn] has just opened. Looks unmissable. Apart from that: Schneider Weisses Bräuhaus and the various kellers you'll find on any tourist map.
2 places i visited last month i enjoyed are
Wirtshaus Ayingers and Andechser am Dom. Youll have to google for there location but there very central.
Also the Weisses brauhaus is great and although extremely touristy if you havent been to the Hofbrauhaus you should drop in for a drink.
There is Augustiner places all over, there all pretty decent.
Dont think you can go very wrong in munich, great city.