Ask what the colonoscopy showed. Did it show ulcers, inflammation, narrowing? What parts of the intestines are affected?
What if any changes will you have to make to your diet? For example, if you have narrowing he may want you to be on a low fiber/low residue diet.
Your doctor is obviously using the lightest meds first and working his way up, so ask him if these meds he's giving you don't work, what is the next step (hopefully there won't be one, but it's good to be prepared)? Ask how long you should give these meds to start working before you need to move to the next step.
Depending on what kind of digestive "issues" (diarrhea, constipation?) you've been having, what does he recommend to control these issues until the medications start working?
Ask him if he'll give you meds for pain management (even if you don't need them now, it's good to know his views on the subject if you should need them in the future).
Ask how available he is for questions and/or problems. Does he want to know if you're in a lot of pain or should you go straight to the ER? Ask him who else you will be dealing with if he's not available (a partner in his practice, or an all call doctor he swaps with) and how available your records will be to that person?
I'm sure you'll get many other questions to ask from others on this site. Start a list, keep adding to it as you go along. Make another copy of your list and hand it to the doctor when you go to see him. If you don't have time to answer all the questions, or he doesn't have all the answers at that time, he can take the list and get back to you (I e mailed a list to my surgeon).
Good luck. I know it's hard getting this diagnosis, but at least now you have a name for all the problems you've been having, and even though there's no cure, there are plenty of treatments available. Don't be afraid from what you've read on this or any other site. Each disease and each person is different, and the people on these sites are usually the ones who are new looking for answers or people with severe disease looking for options. Many Crohn's patients can control the disease with little disruption in their lives.
49 years old, CD since I was a child.
Six resection surgeries, permanent ostomy, adverse reactions to Remicade, finally off of Prednisone, hoping for a long remission from this last surgery.