I think there is a BUG in the manual pitch correction process:

If you make a pitch correction on a selection (to better loop the part you're working on) it seems that Audition misplaces the edit points (wrong time scaling perhaps?) and you can hear corrections that you made on earlier points to appear later where they don't belong.

When you deselect the area, the correction points match as they should.

This makes the whole process quite unusable and cumbersome.