@drazenbebic Using thickbox for the modal I've got a partial solution to this, but it needs a bit more work. Will finish on Monday and update this issue with my suggestion.

@drazenbebic Can you take a look at the commit above, solves usability issues with the admin bar sub-menu disappearing on a loss of focus. Displays as a modal overlay instead, using the thickbox code which is bundled with wp-admin for the plugin information modals. Works on admin and frontend (assuming that on frontend the theme has implemented wp_footer hook, which most of them will have one).