I got the same email for LBP2:CE, so I went in and used "Change Shipping Method" and it showed the updated shipping charge of $0.99 correctly, previously was FSSS. It's a Christmas present for my son, but I'll happily pay an extra dollar to make sure it doesn't get caught up in the Christmas shipping rush in case of a problem. Less to worry about.
Metroid Other M I had with FSSS and it didn't ship until last night. I kind of wondered if it was some investor pressure (there has been some grumbling about FSSS they offer). I've gotten several things using FSSS and they have always shipped on release day, despite the estimate saying a week later, this was the first one that actually used that extra time. I don't mind, I have plenty to play in the backlog and don't really look into spoilers so an extra week for no shipping charge, a $20 credit and no tax works just fine for me.
I was wondering if they would ever do this, because up until now there was practically no reason to use anything else (except release day shipping if you were anxious) - it kind of destroyed the value of the lower end shipping that still cost money. Why pay for ground shipping if you got it about the same time for free? I would think as a business they would want to put FSSS on the low priority queue, if for nothing else than to give paid ground shipping value from the expedited shipment process. But, on the other hand this could simply be an issue with Metroid due to supplies or demand - since even some release day shipments were delayed.
Regardless, $0.99 is less than sales tax and I don't have to drive to the store! I think it is an excellent deal, even without the extra promotional credit Amazon usually adds to big titles.