Howdy,
I had replied previously to your ticket via our helpdesk (support@notation.com) Did you not receive my reply? If not, please check your spam or other junk mail filter or mailbox. And ask your ISP to add us to their "nice" list
My response was that the .not file does not play the ending properly for some reason, but if you need the file for a performance track, you can use File/Export...MIDI, and make sure that "Write out repeats...." is selected. The resulting MIDI (.mid) file will play properly, and give you the proper performance.
Sorry for the inconvenience, and the bug is listed for fixing.
ttfn,
Sherry