Welcome to HW concerned_mom!
Sounds like you are doing the right thing (prefilled baggies with his meds), I bought the little individual plastic pill containers for my son (they come in 2 packs at walmart or CVS). They fit perfect in his pockets.
I know how stressful that first year off to college can be (my first one off to college doesn't have CF and just that alone was stressful, so I feel for you). She is now going to grad. school for her masters in OT. I have an 18 year old that is leaving for basic (USAF) in late August. I have a teenager that just got put into a full leg cast for the rest of the summer and than there is my youngest with CF who is doing really good right now!
Target was our favorite store when my daughter was going away to college for the first year. Also, when filling out your FAFSA and grants for college, I believe there are programs that can benefit you due to your son's CF. Let me see if I can dig up the info.
Be who you are and say what you feel, because those who mind don't matter and those who matter don't mind. ~Dr. Seuss