You do need to remove the engine for access to the transmission. Pulling the clutch cover and clutch will give you access to the selector shaft and shift star.
Also, be aware that a lot of the fasteners will need replaced because they are one time use only. Some, like the main case bolts, are kind of expensive.
If it is only the 2-3 and 3-2 shift, I would look at the shift forks. You would see wear and burnishing on the tips of the fork if it is bent.
There is a slim chance that the shift star/engagement pins could be the culprit. This could be checked by pulling the clutch. It would be worth checking this before pulling the engine.
There has been talk on whether you can remove the lower main case while leaving the engine in the frame. I never heard the final determination on whether this is possible though. Proper and best plan would be to remove the engine in my opinion. These bikes are too expensive to be cutting corners when doing maintenance and repairs.
Last edited by regulusracing; 12-14-2015 at 10:04 PM.
Reason: Added content