No, it doesn't happen when I have the mod removed.
Strange, Nobody else report this problem.
It only affect status bars? (Health, Magicka and Fatigue)
If yes, try this:
Open the HUD settings and go to the "Status bars" menu, then disable every option of the status bar ("Always show" to all and "Don't force show in combat")
Or maybe you have this problem because the mod update the settings every frame. I will check it.
About mod development:
Actually my modding time is less than 15 minutes at week, but this week-end I have some more time. Maybe I could also release an update.
Another mod add the charge bar: http://tesnexus.com/downloads/file.php?id=34905 from TheNiceOne.
I don't know if I will remove it, but actually you can easily disable it in the HUD settings.
About MenuQue:
I've made to much edits in "HUD_main_menu.xml". I've added and edited many lines, and some changes are only compatible with Darnified UI.
I don't know if MenuQue can add lines (Example) between a specific
tag inside the tag in the "Health bar" code
If not, to increase the compatibility, I will have to sacrifice features like bars and icons autofade, and maybe also the charge bar and the shield icon (luckily, the torch icon is safe).
About the charge bar, I will eventually remove it (See above), but I can save the shield icon.