@drm0hr: Just wanted to say thank you for posting your code, this is exactly what I needed to get timing information out the Due -- I was having a tough time wrapping my head around the TC on the Due, even with the datasheet. :~
I'm trying to modify working code (on the Uno and Duemilanove, at least) that decodes a PPM signal from the Trainer Port of my Spektrum DX6i. And, I'm not alone in trying to decode PPM signals read ppm unknown voltage - Arduino Due - Arduino Forum