Those instructions are slightly dated: the new ds3 tool looks different and has more options. When you finish steps 1-6 from those instructions, begin step 7 but choose "XBOX controller emulator" and press enable.
Your controller should now be operable.
_______________ Version 0.5 alpha is available. Pookz had problems with 0.4, but 0.5 worked for him. 0.4 seems to work for most people, but in case it doesn't work for you, here's the link: