Girlie,
Because your symptoms of pain, stiffness in both shoulders (top and front) came on early in your treatment, it's most likely due to starting treatment and stirring up those buggars. Most symptoms rotate through, but for some of us, there are a few that just like to hang on through out our infection.
Mine this time around has been upper back tightness/stiffness, intestinal issues (cramping, bloating & so on) and bladder issues that hang on all the time. The severity of these issues changes around, but the symptoms rarely actually disappear.
My other symptoms all rotate through. The last couple of days, I've had muscle spasms coming back again. When these get severe, I do things like give myself a black eye or fat lip in my sleep.
Oh, and those lovely headaches have come back again, with a migraine a few days ago. I would wonder what's next on the list, but I don't think I want to know ahead of time!! LOL!