From the following links my understanding is that in order to install Windows 8 with a GPT partition scheme and EFI booting, the install media has to boot in EFI during installation.
http://www.eightforums.com/tutorials/15458-uefi-bootable-usb-flash-drive-create-windows.html
How To Make UEFI Bootable USB Flash Drive to Install Windows 8 | Next of Windows...
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