The only time I've plugged a regular controller back in for the Rumble feature was when I was fishing in Ocarina of Time. Just makes it a little easier there. Other than that, the wavebird is my primary controller. We've got three, for when friends come over (the fourth person gets stuck with a...
Target's Free Game bundle includes a memory card with the deal. It's actually physically packaged with the free game, so it's not like they could seperate it. As far as a wavebird goes, you'll have to buy it seperately. It's worth it though.
Check the Coupons & Bargains area. In short, you can get a 'Cube at Circuit City for $129. Or you can take the Circuit City flyer to Target, have them pricematch, and also get a free game and memory card.