Most cases of prostatitis do clear up on their own especially if the prostatitis was caused by a bacterial infection.
When I had prostatitis last year I went to the doctor and they prescribed me some antibiotics to take and within a few months the prostatitis went away.
If you leave the prostatitis untreated it will usually go away on it's own without medical treatment but it will usually last longer.
I would recommend going to the doctor and having the prostatitis checked out and get some antibiotics to take to help it clear up faster.
You can however wait it out but if it gets worse then you should see the doctor about the prostatitis.