Installation on an amd64 EFI-system following the instruction in the handbook https://wiki.gentoo.org/wiki/Handbook:AMD64/Full/Installation grub will emerge for x86 and thus moaning about missing /usr/lib/x86_64-efi directory when running grub2-install. The solution is already provided in the grub2 wiki: https://wiki.gentoo.org/wiki/GRUB2 You have to set GRUB_PLATFORMS="efi-64" in the /etc/portage/make.conf. Could you please include that information in the installation handbook.
Grknight added information to the Handbook that resolved this bug before me, however I further addressed the issue by adding some more clarity to the EFI install section of the AMD64 Handbook. Grknight's changes can be viewed here: https://wiki.gentoo.org/index.php?diff=361816&oldid=197230 My changes can be viewed here: http://wiki.gentoo.org/index.php?diff=409446&oldid=409444