The elevated pile foundation structure is a common hydraulic structure type in Shanghai region. In recent years, structural instability problems often happened due to foundation scour in front of the retaining wall and heaped load behind the retaining wall. Based on the practical engineering and theoretical calculation, and using ANSYS finite element analysis software, the paper analyzes factors which influence the adaptability to elevated pile foundation structure of quay unearthed height, and proposes optimization schemes of the section design.