My only question then is why doesnt it happen with SPQR? I use old 1.2 animation sprites and I use Alin new animation pack.

I dont believe the skeletons have anything to do with the Sprites once they are made the Game doesnt know whether you used New or old animations, its just 2D images.

Now it is possible if someone did the sprites wrong that could be a problem, but the theory of animations beifn the cause when the sprites were made would apply to alot of mods out there using new animations but older versions of their sprites. SPQR uses all Custom sprites, no default so it would be showing in my Mod all the time and it doesnt.

I just didnt want it stated as fact, yes its possible you solved your issue but if others think that is a problem and redo all their sprites that is alot of work for an issue that only happened with your sprites and none of the other mods that I know of?

Anyway its good to know your findings,