I too wound up with \EFI\ubuntu\grubx64.efi as a uefi boot entry on a
machine which had always had secure boot enabled.  This was caused by an
earlier grub-install which left a corrupt /EFI/ubuntu directory, which
gave an IO error on any attempted access.  After fixing the corrupted
directory, rerunning grub-install --uefi-secure-boot added a new,
correct ubuntu/shimx63.efi entry.  Looks like the error checking on
grub-install might need a little improvement -- looks like a check for
shim failed, but only because the directory itself was unreadable.

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https://bugs.launchpad.net/bugs/1170183

Title:
  can not boot up in uefi secure boot mode unbuntu 13.04, can run in a
  live from cd uefi secure mode. will boot non secure boot mode

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