When you did the herculiner, did you spray or roll? Luckily I do have a garage here that I can use to do mine in.I've got a black 2012. I bought mine when we found out we had our second kid on the way. It had more room in the back seat than anything we had at the time but now that our kids are 7 and 14 it is a little cramped back there. I took the factory bed liner out and put herculiner bed liner on it myself. Bought it at PepBoys. It was one of the easiest things I've ever done on any vehicle! I sanded and prepped one day and put the liner on the next day. I live in upstate SC and don't have a garage. I did it in the summer so I could (hopefully) do it without any rain. If you aren't going to be hauling a lot of stuff, I'd suggest using the liner once you get the bed repaired and then put a full shell on there. Those mats will hold moisture, not as much as the factory bed liner but it will still be there. I've got an ARE full cover on mine now and I couldn't be happier. I wrestled with choosing between tonneau and camper shell for months then decided that the camper shell gave me the most bang for my buck with a lot less hassle when hauling something taller than the sides. Hauling kids means hauling a lot of other stuff and having a watertight cover on the bed is fantastic. I had a tonneau on a 94 Z71 that looked great but was a pain any time I had to get into the bed.
I'm considering just finding a shop that will do the sheet metal repair and the bed liner all in one convenient stop...