Polycarbonate (AKA Lexan) absorbs quite a lot of water. To avoid bubbling when heat forming, soak it at a temperature close to boiling for up to eight hours to dry it before going up to forming temperature.
To get even heating, shielding radiant sources helps, but a fan is wonderful. To do small pieces in a home cooking oven, you can stick a rod through the top vent to turn a temporary air stirrer with a drill, among other possible dodges.
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