Large deformation of sand due to soil liquefaction is a major cause for seismic damage. In this study, the mechanisms and modeling of large post-liquefaction deformation of sand considering the significant influence of water absorption in shearing and seismic wave conditions. Assessment of case histories from past earthquakes and review of existing studies highlight the importance of the two factors. Based on the micro and macro scale mechanisms for post-liquefaction shear deformation, the mechanism for water absorption in shearing after initial liquefaction is revealed. This is aided by novel designed constant water-absorption-rate shear tests. Water absorption in shearing can be classified into three types, including partial water absorption, complete water absorption, and compulsory water absorption. Under the influence of water absorption in shearing, even a strongly dilative sand under naturally drained conditions could experience instability and large shear deformation. The mechanism for amplification of post-liquefaction deformation under surface wave load is also explained via element tests and theoretical analysis. This shows that surface wave–shear wave coupling can induce asymmetrical force and resistance in sand, resulting in asymmetrical accumulation of deformation, which is amplified by liquefaction. A constitutive model, referred to as CycLiq, is formulated to capture the large deformation of sand considering water absorption in shearing and seismic wave conditions, along with its numerical implementation algorithm. The model is comprehensively calibrated based on various types of element tests and validated against centrifuge shaking table tests in the liquefaction experiments and analysis projects (LEAP). The model, along with various numerical analysis methods, is adopted in the successful simulation of water absorption in shearing and Rayleigh wave-shear wave coupling induced large liquefaction deformation. Furthermore, the model is applied to high-performance simulation for large-scale soil-structure interaction in liquefiable ground, including underground structures, dams, quay walls, and offshore wind turbines.