Implanon

I got the Implanon implant on 22/11/15 which was a few days after my period ended. I followed the doctors instructions and used a condom for 7 days after. The first month was fine and I got my period when I expected but once my period ended I started getting brown spotting and it hasn't stopped. I've had constant brown discharge for 2months will it stop anytime soon? Can my doctor give me something to stop this? Or do I have to wait it out? It's driving me crazy and I just want to function normally. 
*Also when my partner cums in me it stings. I told him not to cum in me to make sure it was his semen I was sensitive too and I was right.  
Could this be a factor?