I agree with @bghgary, we may want an extra option to add some flags to process the input scene as right or left handed, and to define the intended winding order?
Didn’t know we had so many options. 
I am assuming “by default” they meant if not specified assume counter-clockwise.
LHS RHS OBJ loader option might be helpful
Also instead of assuming LHS, which is what we are doing now, maybe RHS might be better?
Well it depends I feel like no option is good so I prefer to keep it unchanged so we do not break back compat
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Ok.
For now, after loading an .obj I scale by -1 on z axis and then do a bakeTransforms()
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