In every one of these Dogwood Regional
Innaugural events we've seen since the first YMTC of this year, I would have to think that the timing of the regional would play into this.
Update 15 was released March 6, 2008.
Since Dogwood Regional was obviously brought into our lives way before then, the clarification does not exists as spelled out in Update 15 & the call is up to the referees at the regional.

(And a tough one I may add)
I don't like to think that calls would be different if Dogwood was the same week as NYC (the last week) than NJ (the first week) but it is what it is.
Now, past technicalities (sort of) & onto what I would do if I was a ref:
My personal choice would be to give each team something that would lead it to a tie, or replay the match - the latter of those preferred since pretty much when it comes down to it
both teams had a game play limiting match due to a weird action on the field.
And remember kids, all referee calls are final.
Replaying a match (after discussing it with both teams who obviously didn't have the best match they could play because of a set of weird circumstances) is one of those calls a referee could make & have made in the past.
That would be my choice.