Wow. That's a heck of story. The ONLY problem wehave had with my wife's 08 is the whistling noise at highway speeds, which was attempted to be fixed twice by Jeep (under warranty), and I finally fixed it for $4.99 and some foam insulation tape around the front of the rubber track.
One thing I do usually every three to four months when I detail out my wifes LIbby, is I open the top, and take a damp towel or rag and wipe out thetracks. I ususally then take some white lightening or other lubricant and spray a paper towel, and run it in the tracks.
We LOVE our sky slider and use it a lot. I am continually hoping that this thing will not be looked at as the WTF option in the future. So far, it seems like the majority of them do just fine, with only a very few of them having issues.
Best of luck. I know how frustrated it can be, as we had to have a 2007 Patriot bought back from us by Jeep. Keep on them, call, but if you're out of warranty, you are probably SOL. Talk to an attorney, as that never hurts. Letters from attorneys always receive more attention than letters from mere owners.