I understand. I've had this illness for about 15 years now (unsure when it actually started), so I've been through the gamut with antivirals, vitamins, supplements, and medications. You're right, you just have to figure out what works for you, and I'm glad you all found this useful. By all means, take care of yourselves.
For others who are interested in starting out slowly, I can tell you about my own experience. I never had any side effects, except when mixed with other drugs that interacted. (I take migraine medicine and muscle relaxants, not a good combination!) I just gradually felt better over a period of 2 weeks. My muscles stopped hurting, the fevers went away, the night sweats finally stopped, my mouth sores and tongue lesions disappeared, my clarity of thinking improved, and I finally had energy to get out of bed and do my daily activities without feeling like I just ran a marathon. There was never a time where I felt worse before getting better. I don't know if that's related to my dose, to my condition, to the doxycycline, to my other supplements; it could be anything. My experience is, of course, unique. Yours will be too. It makes me sad to think of someone feeling groggy and sick, but as long as you're strong in spirit and gentle with yourselves, I am cheering you on. I'm very excited to hear how everyone's doing, so please keep us posted.