I had a cystoscope that came back fine, does it mean my prostate is fine?

Yes or not...: Direct look into your urethra through prostate into the bladder just shows if there is any suspicion of residual effect of lining from inflammation, stone, foreign body, or tumor, stricture/blockage, etc. Clinically, the concern on the prostate is usually clarified by combing a detailed history, physical exam, ua, etc. Most of the time, it's not that difficult. So, go to ask, talk, and work with.