I dont think you can freeze transforms on joints. My rotations are all set to zero though, and scale is 1 on each joint. Basically, I just move the joints to where I want them, rig, export, and when i upload, include skin weights and joint positions, but it still shows as the standard skeleton, and playing an animation just results in a mess. It's helpful to know at least it can be done from Maya, just not sure where I am going wrong yet.