to add to hata_ph's reply:
My understanding is that, at present, the 'upgrade distro' option (i.e. get all updates to all packages, automatically) is not working as expected. Steps are being taken to fix this issue so that an 'upgrade distro' action works as expected (i.e. your entire distro is upgraded to current within the release version) without ill effect. My guess is that the easiest way of getting back a normal install is to re-install from cd/iso and then upgrade components manually.
I think there might be one package that is an exception but I'm not totally sure. I remember a post from caitlyn regarding a package that gets upgraded in 'distro upgrade' that should not be else it causes major problems because it's a major component/library (glibc, gtk, ?something?).