From the patent.
"It should also be noted that the center line 670 of the driveshaft has not been lowered relative to a ground plane 676 but rather the remaining portion of the chassis has been raised relative to the ground plane 676. In the embodiment shown, the body panel 650 has been raised by approximately two inches relative to the ground plane 676. As shown, and in a first embodiment, the distance 677 between the body panel 650 and the ground plane 676 is 9.12 inches (231.647 mm). In the embodiment depicted in <figref idrefs="DRAWINGS">FIG. 53</figref>, the corresponding distance 678 is 7.261 inches (184.432 mm). Thus, the end result of the design changes mentioned above has raised the ground clearance of the body panel 650 relative to the ground plane, and relative to the top surface of the snow.
Specifically, this has been accomplished by providing a revised bulkhead portion 608A (<figref idrefs="DRAWINGS">FIGS. 56 and 60</figref>), which is provided with a semi-circular portion 608B profiled to receive the drive mechanism 640. Bulkhead portion 608A defines a drive shaft mount portion for drive mechanism 640. In addition, and as mentioned above, the revised spindle 634 has been elongated which raises the location of the upper and lower control arms relative to the previous snowmobiles.
Also, the tunnel 606 is raised relative to the ground by moving the connection of the front control arm 616 relative to the tunnel 606. Namely, the connection point between the two is shown at 690 in <figref idrefs="DRAWINGS">FIG. 55</figref>. As shown in <figref idrefs="DRAWINGS">FIG. 59</figref>, the distance from the bottom of the chassis at 650 to the connection point 690 is shown as distance 686. In the first embodiment, the distance 686 is 3.34 inches (84.84 mm) and in the embodiment of <figref idrefs="DRAWINGS">FIG. 53</figref>, the analogous distance 674 is 5.34 inches (135.64 mm)."
Link to pic.
http://patentimages.storage.googleapis.com/US8733773B2/US08733773-20140527-D00000.png
Lots of pics and measurements in the Patent.
http://www.google.com/patents/US8733773
So the Driveshaft pretty much is in the same position relative to the ground and skid mounting Points but with higher running boards, and the the bulk is higher and the spindles below the lower a-arm is equally taller.
The Engine is lower in the chassie compared to the old pro becuse of different Engine mounts but probably higher of the ground due to the higher bulk.
So assuming the Patent verbiage and dimensions are accurate (which is suspect because they claimed 1 3/8" at the release instead of the 2" that is in the verbiage). Regardless of whether it is 1 3/8" or 2"; if the driveshaft is essentially in the same location and the chassis raised the 2", but they only stretched the C to C of the Chain Case / QD 1/4" the Jackshaft would indeed need to be lower in the AXYS chassis than in the PRO chassis.
So to make a PRO behave similar to the AXYS you need to lower the skis, driveshaft, and rear suspension relative to the chassis. The CofG will be slightly higher than the AXYS because we can't do much to lower the engine but on a budget we can do quite a bit to the old PRO to emulate the changes we see in the AXYS.