Plugin Commander is a plugin management plugin for multi-site mode, which allows further control on network-activated plugins.
It allow you to do the following things:
Mark any plugin in the plugins directory to be automatically activated for new blogs.
Mass activate or deactivate a plugin for all existing blogs
Choose which plugins users can activate and deactivate through Manage->Plugins, for this to make sense you need to disable the built-in plugins menu (through Site Admin->Options->Menus)
Activate and deactivate plugins for specific blogs, even if the blog owner is not allowed to control those plugins.
This is the same plugin previously available at http://firestats.cc/wiki/WPMUPluginCommander, which has been used reliably with wordpress multi-site networks for many years.
Dowmload and info: http://wordpress.org/extend/plugins/plugin-commander/