I don't know what kind of scratches the OP is dealing with here or how bad they are but I got my new Pace Edwards roll top put on today and the installer scratched the crap out of both rear corners of my truck bed just on either side of the tailgate. These would be comparable to scratches branches would put on your truck out 4-wheelin'.
I broke out my 3M 3M™ Perfect-It™ III Machine Glaze, PN 05937 and it took the scratches right off. It's great stuff.
Yeah, I know I should have driven all the way back down there and bitched, made them do it, but price of fuel, I'd do a better job anyway, etc. I just took care of it. But they will hear about it the next time I am in. This is an exception rather than a rule as they have always taken real good care of me previously. Looked like a new kid installler to me that I'd never seen before.
Nice roll top, BTW. Got the new all aluminum one that's powder coated, no more vinyl cover to constantly clean, condition, and have fade over time.
2011 Ford F150 XLT 4x4 EcoBoost, Gray/Silver
2005 Volvo XC90 [more than just a grocery getter!]
1987 Olds 442 27K Original Miles