I did do that already. Do I have to do something in the game themselves? There is also a spot in Controller mapping, under default options where there are drop downs and I choose Joystick for all options ADstick etc.
Under controllers, the use Joystick is checked. Here is the funny part. On the same screen is digital joystick axes and a bunch of check boxes with the axes for the 360 controller. I can check them all but when I click apply, they all clear themselves. In some games, it actually kind of works but not for most.