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not really.
Entropy (equo) is sabayon's main package manager while portage is rather the lower level build toolchain.
You can break sabayon easily and severely by using portage without...

Same here on jaunty. I assume it's not ubuntu related, since I got the very same on a gentoo box since months now, where it's even worse, in addition to the (same) theme/rendering issue, gnome...