I did the Best Buy pre-order with store pickup. i was even signed up to receive the email from Best Buy letting me know when pre-orders were available and i managed to get my pre-order in BEFORE that email went out.
Regardless, I'm not going until I get the email that says my Wii U is ready for pickup, like any other Best Buy online order with in-store pickup. I don't see the point of going during all of the mayhem until i know it's waiting for me, nor would it make sense for them to give out pre-orders based on anything EXCEPT the order in which the pre-order was made.
I pray it all works out. But I just do not believe Nintendo is being open with retailers on how many systems they will ACTUALLY receive at launch.