I believe there are some who are closing up with them on. I usually remove the PUG's so I can wipe ' em off prior to storage, checking for tree sap or bird poo. No reason why you couldn't close up with them on. I guess I would be careful if using the clips, , would not want the clips rubbing on any vinyl or canvas during traveling.
We are using the velcro along the bunk edge to secure the PUG, so I don't think the bunk end would close very well.
2014 Roo 23SS
2013 GM Sierra CC
Prodigy P3 Brake Controller
Nites Camped 2016 -25