The bonding contact presents complex modes in polyurethane-mixed ballast. The commonly used parallel bond model is revised and four different contact models are developed including Ballast-Ballast Contact Bonding, Ballast-Ballast Noncontact Bonding, Ballast-Sleeper Contact Bonding, and Ballast-Sleeper Noncontact Bonding. The mechanical behaviour and energy evolution of polyurethane-mixed ballast with various amounts of glue are studied from the macro and mesoscopic properties. Results show that the elastic strain energy has always been the main form in polyurethane-mixed bed, followed by viscous strain energy, frictional energy, and damping energy. Compared with the common ballast bed, there are more contacts in polyurethane-mixed ballast bed and, when more glue is used, the amount of contacts is further increased while the maximum contact force is reduced. After bonding, the amount of contacts is significantly increased and all forms of energy become more evenly distributed at different surfaces of the sleeper. The kinetic energy of polyurethane-mixed ballast fluctuates with smaller amplitude and convergences more quickly under cyclic loading, which is reflected in the macroscopic aspect that the settlement of polyurethane-mixed ballast bed is relatively small and can be fast completed.