Each time I get sick and end up in the hospital I get a white spot on my tonsils. You've certainly had a hard time these last few years. It sounds as though you've had a great deal of testing to determine the cause of your problems and that at least some of your symptoms have resolved. Be careful to take your medications as prescribed and report any side effects. If you see more than one physician, make sure they are aware of all the medications you are taking.
Pharmacists are also good sources of information about drug interactions.
Sometimes lowering a dose or just time will lower the side effects of a drug. Long-term antibiotic use can cause opportunistic infections. Anxiety and stress could contribute to your symptoms. You mentioned exercise and it sounds as though you try to take good care of your health. Try to focus on a good diet, exercise as tolerated and take minimal medications to keep your system in balance.