I've noticed the same clunk. Good to see that it's not an issue specific to just me.
Another thing I can't seem to get used to is that when I'm sitting at a red light or whatever and the A/C compressor kicks in, I have to have my foot extra hard on the brake to keep it from rolling. This can be disconcerting in traffic.
On a funnier note, I was driving through a parking lot, coasting in gear, when I came to a rise in the pavement. I didn't hit the gas, because I was not really paying attention, and all of a sudden I felt a BIG clunk, and the truck went right up the rise. I was sure Someone had run into me or I had rolled back into them. I figured out, though, that the "hill assist" had kicked in and pulled me up the hill. LOL