I have 34,000mi now, at about 5000mi I had the clunking noise. I did pretty much the same thing except I used dielectric grease (it doesn’t breakdown rubber and plastics). For the back part I forced it from the top using my thumb. Never had a noise since.
Thanks for that tip, i'll do this next cleaning!!!!
I brought my truck to the dealer and took their chief mechanic for a ride. He quickly deduced that it is the sunroof's back panel creaking over rough roads. I'm so unhappy that I ordered the sunroof option. It's incredible to me that a truck of this build quality and capability could have such a glaring issue just 2k into it's life. If you live somewhere that has bad roads like I do, I highly recommend NOT getting the sunroof. Very disappointed that I did.