Thanks for the advice. I did not know that if the rig would work or is compatible with procedural animations. My rig was intended to be of general use and to keep it simple with few constraints and IK bones.
I have organized the bones into groups (All Bones, Weights, Controllers, and PHY/ Physics).
I will keep in mind in the future and change some export settings so that the animations are only baked with just the weighted/deform bones.