The operation and service performance of ballasted track on bridges face significant challenges due to high-speed railway train operations. To investigate the mechanical characteristics of ballasted track on bridges, field experiments were conducted. A coupling model of ballasted track on a simply-supported girder bridge was established using the coupling method of discrete element and multi-flexible body dynamics and analyzes the changes in ballast bed settlement deformation, stiffness and energy with increasing load cycles. The findings reveal that dynamic loading alters the original contact state of ballast particles, displaying notable anisotropy vertically and longitudinally and isotropy horizontally. The vibration of ballast particles on bridges is more pronounced than on the subgrade, with vibration acceleration under the sleeper at 150[Formula: see text]mm depth on the bridge being 2.89 times that on the subgrade foundation. As the system stabilizes, the interlocking effect among granular ballast particles strengthens, reducing mutual sliding and increasing ballast bed stiffness by approximately 7.8–9.5% compared to the initial state, while total energy and dissipated energy gradually decrease. It is recommended to monitor the quality of ballast particles under the sleeper of ballasted tracks on bridges, implement vibration mitigation measures, or periodically replace ballast particles.