Have you ever been in an car accident, bad fall , sport injury or something?
Maybe your spine is out of alignment somewhere?
There are chiropractic info links in our useful sticky thread {post # 1}- also bodywork links if you aren't comfortable with chiropractic.

There are a some other conditions like chronic myofascial pain syndrome, and if your thyroid is off that can cause some increased pain/symptoms.

Can you tell if your other pains are in the muscles or the joints?

How many years have you had TOS symptoms?