OK so if you did not follow the instalation procedure then when you turn the bike on an deverything went thru the motions you secondary stepper motor might have over rotated breaking a tab in the secondary TPS sensor. Like the picture below new on right old on left.
Link Removed
Clearly some tabs are gone. This is
@Jabo75 picture I grabbed from his thread.
Hesitation at 2000 RPM (with Tune ECU questions)
Right now I would say you should pull the secondary for inspection of the tabs and with a small tool see if it has any internal spring tension on the rotating tabs. If any of the two things are a problem I would say a new secondary TPS is in order and needs to be installed per the manual. Well with the exception of removing the throttle bodies I bet it can be done with them on.