I'm only getting the regular box, and honestly I don't care about the disk as I'll be using the digital version (GOG). I'd be happy if you sent a nice jewel case and printed blank disks for us to burn our own DRM free backup disk.
After the Kickstarter ended, I kicked myself for not going in on the CE. They said there would be an option to upgrade pledges once the backer site went live, but I never saw the option to do so. If it ever was added, it's no longer there, so I suppose it's too late now.