I finally found a loud clunking noise in the Jeep. It has been driving me crazy for three months. It turns out that it was one of the lower rear shock bolts. I had to break the bolt to get it off. Since it is a ½” OD bolt I used a breaker bar and ½”-drive sockets. Once off, I could see that the outer diameter of the bolt had worn down to a much smaller size. When I would hit a bump, the shock would travel in the slop first, before compressing and doing it’s normal job. This created a clunk clunk clunk. I cannot explain why the bolt wore so badly. The shock only partially rotates around this bolt by a couple of degrees. Maybe rust and dirt get in there?