Hi,
There is a bug in the “destroy” method (also affecting the “refresh” method) in v1.0.0-beta1 which affects the Bootstrap add-on. I recently fixed it and the fix will be included in the next release but is also available right now in the latest revision on GitHub (you need to get both files directly from these links):
https://raw.githubusercontent.com/vadikom/smartmenus/master/src/addons/bootstrap/jquery.smartmenus.bootstrap.js
https://raw.githubusercontent.com/vadikom/smartmenus/master/src/jquery.smartmenus.js
Please let me know if you still have any troubles after using these latest revisions.