The icon in the menu does not change when the theme is changed. This is true even if the theme has an icon of the correct name. The cause of this is that in /usr/share/applications/fedora-gnomebaker.desktop the Icon= line has the absolute path to the icon instead of just the icon name. It has: Icon=/usr/share/gnomebaker/gnomebaker-48.png When it should have: Icon=gnomebaker-48.png
To correct this will take more work than just modifing the desktop file, since the icons aren't installed in the '$(datadir)/icons/hicolor/' directory to make use of the gtk-icon-cache. Also, some of the src files will need to be modified, since the current icon paths are hardcoded. Some of the steps involved to fix this are documented here: http://live.gnome.org/GnomeGoals/AppIcon I'll work up a patch for upstream when I get some free time, but I'm not going to be backporting a patch to 0.5.1.
Looks like my initial patch has been applied upstream. I'm not going to be backporting these changes to FC5, but it sounds like Bid should be doing a new release for GnomeBaker soon, and should make it into FC6 eventually. https://sourceforge.net/tracker/?func=detail&atid=708501&aid=1540113&group_id=127397