After flying quite a few times, I have had very little damage.
I did have one shift adjuster broken off in the lug on the down tube. A shop I stopped in tried to get the piece out with a screw extractor, but failed. I adjusted the cable by using the adjuster on the shifter and have never bothered to fix the broken adjuster on the down tube.
The only other issue was that they opened the little under seat tool bag, ripped out the lining and left the tools and spares rattling around in the box. If I remember correctly that was on the same trip.
If there were ever any dings, dents, or scratches they were minor enough that I either didn't notice or have forgotten them by now.