Here is a great article about food interactions with drugs sometimes used to treat
Lyme and coinfections. I have been on a few of the meds listed in the artIcle, and I was unaware of these conflicts, especially dairy / calcium with the tetracyclines (Doxycycline, Minocycline) & fluroquinolones (Cipro, Avelox, Levaquin).
It also mentions that caffeine, and therefore chocolate, can interfere with some antibiotics, but then doesn't say which ones.
http://health.yahoo.