The present invention provides a method and a device for zero sequence differential protection in pumping windings of a pumping reactor. The method comprises the steps of: obtaining zero sequence currents of high-resistance windings and zero sequence currents of pumping windings, determining a zero sequence differential protection criteria and a zero sequence overcurrent starting criteria in the pumping windings, and finally, determining whether the zero sequence differential protection in the pumping windings has action or not, so that mis-action of protection in the pumping windings can be avoided, and safe and stable operation of the electric system can be ensured. The method and the device for zero sequence differential protection in the pumping windings of the pumping reactor only employ the zero sequence currents of the high-resistance windings and the zero sequence currents of the pumping windings, the zero sequence differential protection criteria of the pumping windings is related to parameters of the pumping reactor and is not related to parameters of the electric system, and therefore, the reliability and the sensitivity of zero sequence differential protection in the pumping windings can be greatly improved, and the zero sequence differential protection action is fast in speed.