Katherine,
The GPS upload currently doesn't calculate the classifier correctly for line courses. (As you have identified).
The Admin for the event, would need to determine the classifier and edit the result.
I've put this on the enhancement list.
If you do use GPS upload remember to untick the superfluous controls. The result uploaded has multiple F1 punches. I've uploaded a cleaner result by unticking the rubbish. (Not that it fixes the Classifier).
But if you have a Garmin Watch capable of running MapRunG, that's a better way to go as you get beeps at controls and the result is "automatically" uploaded from the watch. See:
http://maprunners.weebly.com/maprung.htmlEven if your watch can't run MapRunG, you can still record your track and use the "Watch Mode" upload and HITMO (Review Results) to get a result (without having to export the gpx track as required by GPS Upload). This approach determines the classifier correctly.
Peter