A number of people, including myself, are reporting issues with custom shortcode/formatting/insert buttons disappearing in their Text editor when this plugin is installed. Might be time to push this issue up to the top of the heap for fixing.
(not resolved actually)
I realize that this is a result of the way that the WP Editor is implemented, but there seems to be necessity for a solution that doesn't invasively remove the custom button functionalities that many other plugins and themes tend to include these days. It's only going to increase as more themes and plugins are developed.