The funds will be allocated to 13 provincial-level regions: Beijing, Tianjin, Hebei, Shanxi, Inner Mongolia, Liaoning, Jilin, Heilongjiang, Zhejiang, Anhui, Fujian, Henan and Guangdong.
Some rivers have exceeded their warning levels in recent days and the Haihe River Basin has seen flooding due to Typhoon Doksuri, seriously damaging water conservancy facilities in some areas.
Earlier this month, the two ministries twice allocated funds to help people affected by the typhoon restore the order of life and production.