The only time flying got me was when I was dumb enough to drink a couple beers before a flight. It was a nightmare! I flew about 60 times that year and the rest were fine. Crazy thing was it was just one giant attack with no cycle.
If you really do have CH you are light years ahead of about 99% of all sufferers since most of us went through years of hell to figure it out and get diagnosed so you have that going for you. AND you are on cluster busters!