Nope, they should download on your Nook no problem. Just make sure to hit the 'Check for new B&N content' in your B&N Library, otherwise they may not show up.
That stinks that you have to wait. But at least you will have a nice library set up before you get it. And if you want to edit any metadata with Calibre (a free program, I always love to put in the series name and number), you have lots of time.
Congrats on your NOOK!