I just came across this thread and thought I would join pprune and respond.
To make it short I have kerataconus in both eyes, worse in the left and have had it for over 10 years. With the FAA I get an opthamologist report every year for my first class and have 20/20 in both. It is a major pain in the a but it has let me fly for a living. Last year I was unable to wear a rgp in my left comfortably and had one segment of an itac put in that eye. Now I can wear a rgp with no discomfort. The FAA had no problem and I was also in contact with the ALPA aeromedical people in Denver.
I continued to pursue a flying carrer in college because it was all I wanted to do, and I never wanted to look back and say I wish I had.