En Masse responded with an explanation and solution for the store snafu. According to the studio, the store provider experienced a "massive systems failure" yesterday, which caused the issues with saving purchases to the hard drives. The vendor is attempting to fix it, but there is no ETA on when the task might be completed.
The good news is that En Masse is watching the purchase logs and will be sending out game codes manually every two hours to pre-order customers. The studio assures everyone that his purchase will be recognized when the system is fixed and that if anyone accidentally purchased more than one copy by accident, the additional copies will be fully refunded.