I think AQ Khan was made the scapegoat by the Army, in oder to hide their own skeletons in the cupboard.
It seems like Army proliferated nukes while under the control of Talibanic generals like Aslam Baig and Hameed Gul. It is highly unlikely that AQ Khan would have proliferated nukes to several countries and no one in government and Army would have known it.
Actually, everyone may have been involved. Army AND AQ Khan. But governments of the time might not be involved, as such delicate issues were controlled by ISI and Army. Political governments were kept away from such issues.