I guess the client configuration is different for wired and for wireless. Please check the 802.1X setting on the supplicant.
There should be no difference between "Supplicant -> Switch -> Access Control Engine" and "Supplicant -> Controller -> Access Control Engine".
As suggested by Roland, check the radius setting on the controller. Check your AAA rules in ExtremeControl also.
Regards
Zdeněk Pala