I called that same number and had a different experience. I was told that it couldn't be done because it was a pre-order, and a lot was made because it was the special edition so...
I dunno if it's worth it to keep making a fuss over it.
I'm very surprised by this. The person I had on the phone looked up NewEggs price with me on the phone and verified that it was indeed cheaper. I did give her the Best Buy SKU# 5732219
and the Newegg Item# N82E16874165024
to make it quicker for her.
I would definitely try calling the 800 number again, give those two numbers, and maybe you will get a different person that will help you out.
As far as making a fuss over it, it is definitely worth it. Not only are you saving $10 right off the top, you are also getting a $20 Reward Zone certificate that is same as cash at Best Buy. You're also getting the limited steel book case free. There is all sorts of win on this deal. I personally loved the first game. So, maybe I have a little bit of bias towards it, I was planning on picking it up anyway regardless of price. Maybe it's more of a happy little personal victory for me!