Rule: ALWAYS update Entropy first, then rest of the packages.
1. su (than your root pass of course)
2. equo update
3. equo install entropy
then exit from terminal and open it again (to make sure you are in the newer equo)
4. su (again, your root pass)
5. equo world
If all that finishes successfully, your system should be updated and working as it should be.
PS: don't forget to match your drivers with the kernel before reboot (if needed) - DO read this: http://forum.sabayonlinux.org/viewtopic.php?f=57&t=16399
(actually important for pre-4.2 version... so it shouldn't affect your installation, but still you can have a look