I never tried pathogen, it is probably very useful but in the example you give I have no idea about where my plugin is plugged, so I don't know how to rm it if needed.

By default it uses ~/.vim/bundle/ Just drop directories into there to install and [re]move them to uninstall.

It really is a thing of beauty.

    let g:pathogen_disabled = []

makes an exclusion list to disable without actually removing a plugin.