It's hard to beat Pizza Guys! They have excellent gluten free crust and great pizza variety. They also allow you to create custom options. Pizza isn't the only thing on their menu either and everything is good.
Of all the pizza spots in town, this is where we default. Their service is great whether you're going in for a pickup or receiving delivery. They have a very decent online ordering system, which seems to be continually improving.
Bonus: pick up in store and get a free 2L of soda or free ice cream.