try this thread:
http://forum.xda-developers.com/showthread.php?t=405749
this will allow you to make changes to TF3D (apply themes, reorder tabs)
then this:
http://forum.xda-developers.com/showthread.php?t=437420
this will allow you to change the look of TF3D (lower and upper curtains, clocks, sliders, etc)
I have tried to use the manila customizer to change the stock verizon TF3D theme but have not been able to....but if I change my theme using the TF3D config, i can change that theme. not sure whats up with that.