As mentioned take it in. Also, as mentioned the transmission may have adapted wrong. If you car was on the last at all, and had more than say 20 miles, it was probably test driven or driven by someone there that hammered on it a little. It could have thrown it off.
I have the 8-speed in my Ram Truck and wife's Jeep GC. Both of those vehicles have over 30k and more on them. Transmission never clunks in a township except very rarely. Usually when coming off an offramp that is a loop and it has to jump 4 or 5 gears due to rapid reduction in speed. Even then it is rare. If it is doing it all of the time it needs to be looked at.
Don't feel bad, I bought a car while it was in transit. I have been going through an ordeal because the inside of the windshield has a gouge in to that was obviously done at the factory and the steering wheel is coked 2 degrees to the left. The worst part if the transporter chipped the paint right on the body line on the passenger side right by the door handle. They have offered to paint it to fix it. Problem is to do it right, because of where it is, they will have to repaint nearly half of the car to blend it in. My car is indiGO blue so I am hesitant that it won't look right when done. With touch-up paint it is hardly noticeable but still.
