To remove menu entries you have to edit:
usr/share/applications/mimeinfo.cache ~/.local/share/applications/mimeinfo.cache ~/.local/share/applications/defaults.list
And, right click on file you want to remove bad menu entries from, and choose Properties. On the 4th tab you can delete unnecessary entries.
To remove all programs installed under Wine, remove the wineprefix (usually the ~/.wine directory) by carefully pasting the following commands into a terminal:
cd $HOME rm -rf .wine
But that doesn't remove them from the system menu. To clean out the menus, carefully paste the following commands into a terminal:
rm -f $HOME/.config/menus/applications-merged/wine*
rm -rf $HOME/.local/share/applications/wine
rm -f $HOME/.local/share/desktop-directories/wine*
rm -f $HOME/.local/share/icons/????_.{xpm,png}
rm -f $HOME/.local/share/icons/-x-wine-*.{xpm,png}
Full article here