Wow, you really have had an unbelievably bad time! I'm sorry about all that happeninn to you.

I'm not certain of the achey joints & given all the complicating medical situations you have had, I'm hestitant to give my simple experience.

Muy muscles ached from MS, It causes me to walk spactically, like a robot. I had a group of teenager shout out to me from their moving car "Stop drinking you alcoholic"

I think brcause my muscles ache, I attempt to walk with minimally contracting muscles & my hips and knees end up bearing the weight.
My hips & knees don't hurt yet, but I imagine the longer I walk this way, they will eventually.

My simplier problems then YOURS. But perhaps you will see somnething in it.

I'm able to use Tylenol for the sore muscles. I think others are able to use baclofen or even a baclofen pump. I don't have any experience with that though.

I hope other reply with more experience for replying to your post.

I would bring this up with your doctor/(s), and I hope you have one PCP who knows all of your history. (S)He would have the best idea of where this is coming from, or where to direct you for help. I, too, have had a multitude of health issues, and sometimes odd symptoms come from something different than one expects. I hope you get some relief.