If I understand what your asking, it's the browser plug for fullscreen your having issues with?
If so that requires an action by the user *first touch, a specific button touched, etc. and is how the browser is designed (likely for spam popups).
If you're publishing to Android, IOS, etc you can just change your config file to request fullscreen. You might fiddle with your config and see if you can just make that happen when using an html5 file(I'm assuming your apps are local and in html5 format). I'd be curious to know and have never tried it.