Fire up the dashboard, connect your PC to the "dashboard" port on the OI, and check the PWM values there. They are changing, correct?
To check center on your joysticks, you can move the jumper just below the dashboard port and check the new screen. Center is 127.
The dashboard viewer is at
http://www.ifirobotics.com/dashboard_viewer.shtml. Yes, 2005 is the latest and yes, it will work fine.