Yes! I can't live without mine. They are what keeps my gut in balance (I also have Crohn's Disease).
I take them on an empty stomach when I first get up in the morning - almost 45 minutes before I eat or take anything else. I haven't heard of anything conflicts with anything medicine wise - except antibiotics - you need to keep these at least 3 hours apart so as to not kill the good bacteria you just fed your body.