I just recently switched to Fedora 15 with Gnome 3 and the Gnome Shell, but I haven't been able to successfully change the Applications menu shortcuts and groupings. I've tried both the alacarte application and manually editing the .desktop files in /usr/share/applications/ but both either do nothing or create duplicate applications.
I don't want to change any launch options or more complicated features, I'm just looking for the best way to remove applications from the list without uninstalling, add and remove categories (ie. remove Universal Access and add Wine), and move applications into different categories (like Tweak Settings into System Tools or Eclipse into Office). Getting Alacarte to work correctly seems like the best solution, but it seems like it hasn't been designed for gnome-shell.
I am running dual boot Windows 7 and Fedora 15 with Gnome 3 and Gnome-Shell, kernel 126.96.36.199-32.fc15.i686.