We examine the nature of Josephson junction between two identical Fe-pnictides with anti-phase s-wave pairing. pi-phase shift is found if the junction barrier is thick and the two Fe-pnictides are oriented in certain directions relative to the interface. Our theory provides a possible explanation for the observed half integer flux quantum transitions in a niobium/polycrystal NdFeAsO loop, and attributes the pi-phase shift to intergrain junctions of Fe-pnictides.
