Hi,
Plugin is not depended on the theme, so it should be work with any theme, and it does as far as I have tested. But, there are 2 common issues that might happen:
1. some themes can have nasty styling that might prevent my plugin to show (or it is left hidden due to theme styling).
2. theme (or some other plugin) is having errors in jQuery, and any jQuery error prevents running of jQuery code that follows. Since my plugin tries to run at the very end of the page, previous errors can cause problems.
I would need to see your website with theme and my plugin active (and at least one sidebar added and active) to be able to recommend what to do.
Milan