Hi, this just happened to me too. I don't know if the problem results from cloning the drive, but that's when I noticed it. I pulled my internal drive from my Macbook, installed it in a USB case, and then cloned it to a new drive I had installed in the Macbook, and both disks show up in the startup disk chooser as "EFI Boot" rather than with their correct name. The correct name appears in Disk Utility.
Don't know of any solution, can someone help? Or at least let us know if this is something that will cause trouble down the road?
The gory details:
Booted up from an old backup on an external firewire drive. Used Carbon Copy Cloner to clone my up-to-date main drive, which was pulled from my Macbook and installed in an external usb case, onto a new, larger internal drive I had just installed in my Macbook.
On restart, the Macbook wouldn't boot at all with the new cloned drive installed (yes, it was formatted as mac os extended journaled w/GUID partition), but gave some error messages at a command line and stalled (including "syslogd: exited abnormally: Bad system call," "config file /etc/notify.conf not owned by root:ignored," "com.apple.nibindd: exited abnormally: Bad system call," and finally "my-computer:/ I have no name!#"). Removing the internal drive allowed me to use the 'option' key to select the FW drive as startup disk & boot from it.
Disk utility wouldn't allow me to repair permissions on either the source of the clone in the USB case, or the target, once I removed it from the Macbook and installed into the USB case in turn. In both cases, DU showed "Owners enabled: no." Using a command I found online & entered into the terminal (vsdbutil -a), I was able to reset it to "Owners enabled: yes" and repair permissions on both drives. I could then boot from either of them installed in the USB case. (Probably unrelated, but it seems the clone operation didn't work %100: on the target drive, I got some messages saying some .kext files were not installed properly, even though the source doesn't seem to have any problems; so will try the clone again).
However, now when starting up with option held down, both of these drives that I was copying to/from show up as "EFI Boot" rather than their correct names. (The old FW backup that wasn't part of the clone is fine). When installed in my Macbook, the "EFI Boot" drive will boot properly, except that there is the folder-with-question-mark that flashes up for half a second before the apple icon appears and booting up begins.