I see him April 12 and am waiting for a call back from him actually. Hopefully that call will come soon!
I had Lyme and Babesia at the same time and was very ill. I was treated for the Babesia first, with atovaquone and azithromycin for several (~4?) months. I don't recall neck pain specifically, but everyone is different in how symptoms show.
When do you see your doc again? If it's going to be a while, I could call and ask to see him/her sooner just to be on the safe side.