Hiya SB...
I looked Teton over and here's what I found.
Your pin 1's are scattered all over the place on the greens. They are not near the center where they should be.
Your OVERLAY planar sizing is too short compared to the Google Earth yardages. I read it to be off by about 5 yards short over a 300 yard span. That will definitely cause you problems getting the yardage set correctly from center of the green to the tee box. Most likely that is why you ran into problems setting the correct distances on each hole.
Given the current state of APCD construction, to correct it I would first delete all pins and start over. Plant all of the pin 1's in the center of the greens, and then move the tees to where they add up to the correct hole yardages. Moving the tees might cause you to have to also move the tee boxes. That can actually be done pretty easily, rather than rebuilding them. Worst case might be that you may have to rebuild a couple of them, but then maybe not.
I didn't really look at anything else after that. I just wanted to see if I could see what your yardages issues were. Some changes will need to be made if you expect the yardages to match the real course. Don't be discouraged. I personally think you did a great job on the overall layout and course construction. Especially with this being your first go at the APCD.
Dan