Minocycline was one of the abx when I started Lyme treatment, it was combined with Azythromycine and Plaquenil.
It was very hard on my digestive system. I tried for about a month, lost 7 kilos because of the nausea and constant diarrhea. I thought I had to be tough and continue (I was new to treatment, didn't know a thing about it), but I couldn't go on anymore and called my doctor. He immediatly changed my protocol.
If you have the possibility to call or email your doctor, do so. He might consider it necessary to adjust your protocol.
I hope you get relief soon...
MarieLS