The commander was captured recently in a planned operation led by the Afghan National Security Forces and Australia's Special Operations Task Group.
During the operation, leader and improvised explosive device coordinator Mullah Janan Andewahl was captured in the Mirabad Valley, located in the Oruzgan Province.
Defence claim he had been responsible for directing attacks and roadside bombings against Afghan civilians, military and ISAF assistance forces.
Defence said Andewahl had been a "person of interest" for some time.
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He is now in the custody of Afghan local authorities.
Army chief of joint operations Lieutenant General Mark Evans said ensuring Andewahl and others like him entered the Afghan justice system reinforced the message that the war-torn nation's government was intent on restoring security.
