Just to add a little more to the discussion:
As I mentioned, I'm seeing a little bit of the same issues with my new set up, and sometimes if I hit just the right spot, it can get a bit worse. I did a little searching on some other forums, and it was recommended to another user (having similar issues) to change over to VT (variable torque) instead of the default CT (constant torque). I tried this, and wouldn't you no, ALL of the vibrating went away.
UNFORTUNATELY, this also removes all of the torque on your lower speeds, and if you have any tension on your belt, or just put your finger on the drive wheel, it stops the motor from turning. You can mitigate this SLIGHTLY with the boost feature by switching from fixed to adjustable and cranking the pot all the way up. Of course, when you do this, guess what? The vibration comes right back.
Just turning the pot left and right while the machine is running, however, you can see/feel/hear the vibrations changing along with it.
Ultimately I switched it back to the original settings, as the vibration wasn't terrible anyway, and I'd much rather have my low end torque back.