The bacteria is untouchable and unrecognizable by the immune system and most antibiotics and herbs when in cyst form or in a biofilm. Remember that other coinfections can even hide in a biofilm alongside the Lyme bacteria.
Also, if you find that your treatment protocol isn't working, make sure you're addressing possible coinfections that you may not be aware of. Look for common symptoms of Babesia (shortness of breath, night sweats), Bartonella (foot and calf muscle pain, marks on the body that appear to look like stretch marks), and any of the other common coinfections that may have possibly accompanied your Lyme Disease.
Remember that test results should never be taken in their entirety. A person can continuously yield negative test results for Lyme and its coinfection, and still have full blown Chronic Lyme Disease. Use your symptoms, rule out all other possible major causes, and most importantly, go with your instincts!
With the precarious nature of diagnosing Lyme Disease, and even the nonacceptance among physicians of its existence, let no physicians opinion be your perceived or desired truth without rational inquiry.