Clicking on options/controllers/calibrate should open a window telling you to move all axis through their full range of motion then click OK.
To check to see if the game is "seeing" your controllers click on options/controllers/map controllers. On this window click on the top drop down box. This will show you all the controllers the game "sees". Clicking on each of these one at a time and then clicking the "calibrate axis" button to the left will calibrate that controllers.
If doing the whole set at once doesnt seem to work, try doing them one at a time. Let us know how you make out.