Same issue here. Major joint and muscle pain since jpouch surgery. Wakes me at night. Thought it was antibiotics but have finally been off for over two weeks. It is very debilitating. It can be caused by pouchitis or cuffitis or just the inflammation attacking other areas now that colon is out. I also get inflammation in my left eye since surgery and never had before it. I have thought about going to a rheumy also but also do not want more drugs. Possibly exercise may help?