I'm not familiar with the latest design of the 787, but damage when loading cargo is a major concern with a composite fuselage as you can imagine. I am sure they have it figured out and will have improved ramp operations by the time the a/c goes into service.
We had someone run a provisioning truck into the horizontal stabilizer on a brand new (less than a week in service) A319.
Airbus had to load up a new stabilizer and fly it in on the Beluga.
It was cool to see the Beluga though.