If you did accept GPS data for an "off-road" certification, additional requirements should include the GPS device being mounted to the bike (not the person), two measurements of the course (but I would probably relax the 0.08% requirement a good bit), and submission of raw track data from the device for both rides.
As Lyman says, you would just be trying to ensure that a 10k trail run was within a 100 meters or so of the correct distance. GPS is certainly capable of that if used properly.