THis is an odd one. Can you make it do it all of the time while running and NEVER while off? HAve you tried running it in N and the brake on then getting down in the compartment by the pedals and pressing it with your hand to narrow down where the noise is really coming from?
There is a slight amount more resistance on the pedal when the motor is running, but it is really slight and only when opening it from idle - i doubt that is the cause.
2005 Rubicon Unlimited Sahara #609 of 1000. 4 speed auto. Sirius Sat Radio, Mile Marker PE8000 Winch, 2" BB from Rocky Road, 32" BF Goodrich Radial TA/KO, RB1 NAV Radio with Ipod Controller