Treatment timing

I suspect I am dealing with something infectious/inflammatory right now. After a virus my facets seem very inflamed but so does my shoulder and multiple other joints in my body all at once and for three months now with little change. I do have lyme and recently tested positive for it again so it may be that or something autoimmune. My question is, does it make sense to get on top of the infection/inflammatory response to this first then pursue treatment with your clinic or just jump right in? Will creating more inflammation in that area only prolong the issue? I dont want to waste the money doing it at the wrong time so trying to decide correct order of operations. Thanks