Yeah you can trim the shaft down a little bit without creating an issue.
I was referring to droop from what would be normal ride height of the suspension (beams level), to the point at where the shaft bottoms in the yoke.
IMO, if you're getting at least 6-8" down from ride height, I think you'll be fine. Beyond that, the camber curve starts getting pretty ugly.
Keep in mind, I'm referring to total droop (both sides) like what you'd have while coming off a jump. During articulated flex (one side drooped, one side stuffed) such as while rockcrawling, this camber change is mostly unimportant. Since articulated flex doesn't plunge the shaft inward, you should see more travel than when both sides droop at the same time.
FWIW, I recall mine hit bottom as well if I have my limiting cable disconnected (hitting about 2-3" short of full droop). It never caused an issue for me, even before I put the cable on.