After years of having dystonia, is the skeletal system affected in any way?

Dystopia. Yes, dystopia does affect the skeletal system if it is severe enough to affect weight bearing exercise and normal movement there will be a decrease in bone density similar to bone loss seen in other conditions affecting normal a.
Muscle imbalance. Dystonia is a state of muscle control that does not allow relaxation and sets off severe muscle imbalance. If this affects throat muscles it will cause swallowing and speech and even breathing problems. If this affects hands and feet it will distort joints and result in severe joint and bone defects.