I, too, have read about the brake squeak problem, but I have not yet (crosses fingers) had any issues. I bought my TCH in April, and I think my VIN isn't included in the TSB. My advice to you would be to take it to the dealer asap to have them check the brakes. It may be nothing, but a klunking noise from the brakes might indicate a serious problem.

On a side note, when I first got my TCH, I would hear a klunking noise coming from the rear of the car when accelerating/decelerating. It didn't happen all the time, but it did concern me. I decided to rearrange the emergency kit in the trunk to see if that would change anything. While doing so, I found a plastic bag containing two plastic brackets and hardware sitting next to the pass through to the rear seats. I moved this bag, and haven't heard the noise since. While this may be unrelated to your situation, you may want to double check if anything in your trunk could be moving around.

Good luck and enjoy your TCH.