No idea as I use only Sense.
But I guess that is not possible the old school mod way.
I use sense launcher too and I'm using your mod. It makes the navbar transparent in the launcher as expected but I just wondered whether it was possible to have it transparent in all apps and not only the launcher. It feels like a waste to have a black bar at the bottom where only navigation buttons are visible. Would be cool to be able to use the whole screen and navbar buttons just overlayed at the bottom. Maybe it's just not possible though