With "repositories" I refer to the sites you download packages from. A "repository" is the term for a download site which carries RPM packages and meta data for package tools like Yum, up2date, Apt-RPM. In the output I see several packages from freshrpms.net, which makes your installation and configuration unsupported. In particular, because some of the packages even upgrade Fedora Core. Using Synaptic (and Apt-RPM) also makes you unsupported, unfortunately.
If the problems reappear, it would be important to file a bug report and also find out whether it is reproducible with Synaptic and just Fedora Core packages. For instance, the person behind freshrpms.net takes bug reports via the bug database at http://bugzilla.atrpms.net