If you're in the Columbia area, Shakespeare's is a must. Most days there is a wait (both locations are usually packed), but it's well worth it.
I also have to give props to the Greek restaurants in the area, especially G&D and Angelo's they too have great pizza, a must try!
Shakes is great, but I have to say I like G&D just a little better. I recently had A friend also mention Angelo's in COMO, it's on the list. I just hope I can remember not to automatically go to Shakes or G&D...
Here is the list as I have it so far, not includeing chains or places I've been.
Pizza to do list:
Laganini Pizzeria and Restaurant, St Louis
Monte Bello Pizzeria, St Louis
Bono?s Pizzaria, St Louis
Woody's Wood Fire Pizza, Joplin, MO
Blue?s Market, Newburg, MO
Friday's South, Collinsville, IL
Pizza Kwik, Jefferson City, MO
That's a Nice'a Pizza, Arnold, MO
Pryor's Fresh Pizza, Rolla, MO (had pizza here a few years ago)
Alex's Pizza Palace, Rolla, MO
Leo's Pizza, Kansas City, MO
Wine Tap, Belleville, IL
Sera's Pizzeria, Maryland Heights, MO (St Louis)
Vito?s Sicilian, St Louis, MO
Waldo Tap Room, Kansas City, MO
Red and Moe, Columbia, MO
Cicero?s, St Louis, MO
Schlafly Bottleworks, St Louis, MO (Had it last week, excellent!)
T?s Eatzeria, Lake St Louis, MO
Minsky?s, Kansas City, MO
Pizza By Stout, Joplin, MO
Pizza by the Chef, Hollister, MO
Places I've been.
The Good Pie
Some of the Chains.
I appreciate all of the recomendations, but I know there are more good places out there, so keep them coming.
Just a quick heads up, Anthony Bourdain apparently visited Woody's Wood Fire Pizza in Joplin on a recent episode of his show 'No Reservations' if you want to see what it's like. I missed the episode but I'm going to try to catch it on re-runs.