I'm having an issue with recompiling the model in Blender(so I can use it in SFM/GMod), since the eyes use a different UV map than the rest of the model, baking the textures results in the eye texture covering the textures for the rest of the model.
I'm still a bit new to Blender, and none of the tutorials I can find cover this specific issue. I've tried combining the UV maps, but moving vertices to fit the eyes messes up texture mapping.
Is there any way I can bake all the materials into an image texture?