I don't think the paper towels were used on the carpet at all. With the adipocere present on the towels, I believe they were used to clean KC's hands after handling the decomposing body directly. As I've stated before, I believe one of the visits to the Anthony home was to further "bag" Caylee after she began to decompose and her face distort. I think this is when the paper towels were used.
Also, I'm still not convinced the duct tape was put on Caylee antemortem. I'm like 50/50 on that. As I've stated before, I believe Caylee was in the trunk, either in a blanket, the laundry bag or nothing at all, and then she began to decompose - tongue protusion, fluids leaking from her mouth and nose - and then KC had to do something. So she double/triple bagged her, but before she did she taped her nose and mouth up to stop the fluid leakage.
If adipocere had formed by this time, and KC got it on her hands while handling the body, this waxy coating on her fingers could explain why there was no fingerprints on the tape. (There's also a second theory on why there weren't any fingerprints on the tape that have to do with chloroform.)
I still tend to believe that KC chloroformed Caylee for the purpose of drowning her without struggle. And I still tend to believe she didn't tape her mouth shut until she was faced with the horror and fluids of Caylee's decomposing face. I don't believe the multiple pieces of duct tape point to rage at all. I believe they point to panic...and having to handle your murdered child's swelling, rotting face while trying to keep her from seeping all over your trunk would be about as panic-inducing of a situation as it gets...especially when the tape won't stick!