I've bought an interesting instrument recently, a zurna, which I was really excited about. The problem is the same day I first used it (without cleaning it before, yes I know, stupid) I got quite an unpleasant case of gastroenteritis. I can not say for certain that zurna is to blame, nevertheless I want to thoroughly disinfect the instrument before I play it again. There was already a question about effect of rubbing alcohol on reeds. Although I am interested if there are any commonly used techniques of cleaning and disinfecting woodwind instruments besides it, that would least damage them?
Rubbing alcohol will not damage the wood of reeds or the body of the instrument. But there might be problems with the surface finish (if any) of the instrument and/or any glue used on the reed. I don't know of any other disinfectant that wouldn't cause more problems than rubbing (isopropyl) alcohol, though. Try it out on a small area first.