The beach protection engineering was applied for the first time to the head of Manyusha shoal under the dual influences of runoff and tide. In order to ensure the quality, regulation effect, and stability of Manyusha shoal head protection engineering, we carried out some detail treatments for Manyusha shoal head protection engineering based on the analysis of flow characteristics of Manyusha shoal reach in Kou’an straight reach of the Yangtze River and according to achievements of the local scour flume test, by which, not only the stability of engineering structure was ensured, but also the loss of flood damage was reduced and the cost of project maintenance was cut down. It may serve as a reference for related engineering design and construction.