Abstract: To guarantee the safety of high-speed railway bridges and tracks as well as the normal operation requirements during the construction process of river underpassing, it is highly essential to conduct a research on the special design scheme for river crossing high-speed railways. Based on the engineering demands of the intersection section between the Beijing-Shanghai High-Speed Railway and the Jiuxiang River renovation project, the comparative analysis of excavation methods and mechanical types in the design scheme for river underpassing railway was carried out, and further optimization analysis of the design section and crossing position was conducted. The research found that the open-cut construction method has a significant impact on the Beijing-Shanghai High-Speed Railway and is disadvantageous for controlling the deformation of railway bridges during the construction period. To reduce the disturbance to the stratum during tunnel construction and effectively control the influence on railway bridge piles, it is recommended to adopt the 5φ8.1m composite earth pressure balance shield construction method and the construction scheme crossing from the 116m-span tied-arch of the Shanghai-Nanjing Expressway. It is also proposed to use φ1000@800 bored interlocking piles for isolation protection between the shield tunnel and the bridge piles, and to carry out grouting reinforcement of surrounding soil to control the further development of settlement and deformation.