Can you elaborate?
You want the sticks oriented like the green, not the red. (see
orientation in the FAQ)

I didn't see it at first, either, but look at the joystick bolt patterns in the OP pic:
- blue stick is either turned ~10 degrees CCW or ~80 degrees CW
- yellow stick is correctly aligned 
- purple stick is almost at a Q*bert angle

- red stick is either turned ~10 degrees CW or ~80 degrees CCW
Unless there are some very odd adapter plates under the CP, the orientation of the sticks (especially purple) will make them very hard to use without accidently hitting undesired directions.
Scott
EDIT: Found another pic of the CP and the angles are even worse than I thought.