Clunk going into "R" from "P" or going into "D" from "P"?
The "a bit stronger" engagement into "R" has possibly two reasons, if I remember correctly, or at least one. The apply pressures for "R" are higher than those for "D". The fluid circuit for "D" goes through an accumulator (with a spring behind a piston) to soften the engagement.
Even when the car was new, and especially after the OEM fluid was changed, on the first start of the morning, if the transmission was shifted into "R", the car might not move immediately, but would after the fluid circuits got fully charged a second or so later. Perhaps the higher line pressure in "R" was to compensate for that a bit? The way to counteract this is to start the car in "N", which has better flow to the torque converter, rather than "P", which only has "lube pressure" in that selector position. By comparison, these situations don't seem to happen in GM transmissions, for whatever reason.
So, some mild clunks are normal in your situation. And, if cruising at about 45mph, some quick on-off throttle activities can induce similar clunks from the rear axle. That's normal, too.
Just some thoughts,
CBODY67