Probably not but check with Jeremy to be sure. The integrated Supercharger is built right into the circuit board. The retrofit has to stand over some small capacitors and needs an extra 1/4" or so. I'd assume that the v 2.0 is the same height as the original Ember w/o the taller standoffs that come with the retrofit.
Since the chassis extends out the same top and bottom near the volume pot, it's really just a matter of mounting the knob not too far back on the shaft so that it doesn't hit the chassis. No modification of the chassis should be need in either case. All I did was make sure that I tightened the hex screws while the knob had about 1 mm clearance. It works smooth as silk and the larger diameter gives better fine control.
Again, to be sure check with Jeremy first. He is very helpful and has seen and mounted this knob.
Thanks for your detailed answer. Already emailed Jeremy about the knob. Hopefully, he can do the job, I mean, I know he can. He's the man!