I have a 4-door and I have (clunky) rattle on the driver side. It is something to do with the striker plate and door locking mechanism. I have read that adjusting the striker plate stops the rattle as well as air leak (in 2D).
I tried adjusting the striker plate all the way inwards and it stopped the rattle but then the door is no more flush. I am also starting to hear slight rattle on the passenger side too. Going to dealer this weekend for 90 day check. Let see if they can tweak the striker plate to stop the sound.
I fixed mine using 2 or 3 turns of electrical tape around the striker plate pin on all 4 doors just in case, zero rattles !!!!