This is really a strange problem. When I start the computer after cycling the power to the system and run the usb -vvv 
command it shows that the Thrustmaster Joystick that I am using is not connected. 

However when I disconnect the joystick and reconnect and run the same command again I can see it being listed with all 
the necessary information. 

The more funny thing is a system reset does not cause this problem. It only happens when I disconnect the power cable of
 the computer and reconnect it. 

The is also another USB device connected (a rudder pedal) and it works just fine with the system. 

The mainboard is a Q35 with a ICH9 controller. The same joystick works fine with another system (different motherboard 
and older). 

Anyone have any idea?