I'm not a doctor, but if you do a search for the type of infection you've been having (yeast?), you will likely find a number of threads that might give you some guidance. There are number of women on the boards who've battled with persistent problems "down there" and there are a number of homeopathic remedies and whatnot suggested. I'm used some myself w/ success.
As for the shorts, I'm not sure what to suggest. TE sells some wool shorts by Ibex, but I would assume that the chamois itself isn't wool. Frankly, I can't imagine that cotton would be a good choice. It gets wet and stays wet, but not knowing the specifics of your brand of infection, I don't really know.
Live with intention. Walk to the edge. Listen hard. Practice wellness. Play with abandon. Laugh. Choose with no regret. Continue to learn. Appreciate your friends. Do what you love. Live as if this is all there is.
--Mary Anne Radmacher