Yeah, I'm not one of those "my doctor said so" people. I know what you mean though.
I am being very laid back while I consider treatment and waiting for the labs he ordered through quest to come back. I went Monday, and had everything forwarded to my primary (even though he is almost useless... knows nothing about small fiber neuropathy. I actually think he is frightened of it. It was his PA actually who discovered my crazy high ANA- so I'll probably stick with her as my primary)

The lyme doctor gave me a packet of his info and research to give to my primary doctor and is willing to work hand in hand with him. This guy is a real doctor and knew things that most average primary doctors do not. He went over my blood work and asked me if I was checked for this, that, and the other thing (not having to do with lyme....) He is the first doctor who recommended a hematologist to find out why my ferrritin and copper are so low. He recommends a mammogram soon because I turned 40.
I do think he is a mad scientist who obsesses on tick borne illness, but that might not be a bad thing- since it is a possibility.

There are actually studies that show that Lyme bacteria can change into a round form, and possibly invade cells of its host to evade antibiotics. Some of these tests have been done in cultured human cells of various types only, so it is yet unclear as to whether or not the same holds true for human hosts, but it does raise questions...so whether or not the spirochete involved in Lyme infection changes forms still is a possibility.

Plaquenil has been shown to have an effect on killing this round/cystic form of the bacteria.

Well it sounds like you are in good hands! It's hard to find someone who thinks outside the box.