Alright, essentially the problem I have been having for the past few weeks is a issue with my characters model. What the problem is I am not so sure but here is my “symptoms” if you will. So I create a simple .dae file inside MakeHuman, Then I export it into blender so it converts into a blend file and I can work on clothing, So anyways I decided to export my character (un-clothed) into unity just to test the rigging and skinning (the control over the mesh is maxed out or “red” inside blenders painter) But as I go to test my character in unity with using Mixamos skinning test it like distorts the mesh in very strange ways, so I decided to go into the muscle view within the unity editor (configuring the humanoid rig on my character) and it seems as if my bones go behind the body and drags them from back there, However in a regular view (T-Shape) the bones are perfectly aligned within the model. Any help is appreciated.
Turns out Rigify is better for the animation then free handing the skeleton. Closed.