With all the recent churn in bootstrap-prefix.sh now is a good time to use the new default location instead of the deprecated location. Please use etc/portage/make.profile
huh? it already does, doesn't it?
% grep make.profile bootstrap-prefix.sh einfo "You need to set up a make.profile symlink to a" if [[ -n ${profile} && ! -e ${ROOT}/etc/make.profile ]] ; then ln -s "${profile}" "${ROOT}"/etc/make.profile
http://overlays.gentoo.org/proj/alt/changeset/61121