In order to deal with the thermal management problem of high-energy high-repetition rate laser amplifiers, the efficient heat removal in water-cooled Nd:YAG active mirror amplifiers is investigated in detail through numerical modeling and experimental analysis. According to the low Reynolds number k-εturbulence model, a full fluid-solid conjugate heat transfer model is established to give a comprehensive model of flow and thermal characteristics in three dimensions. The thermal distributions obtained from the model are then used to calculate all mechanical stresses in the laser medium and thermally-induced wavefront distortions. In comparison with the standard k-εturbulence model, the influences of the near-wall treatments of the above model on the process of fluid flow, convection diffusion and heat conduction, and temperature distributions are analyzed. Meanwhile, the effects of coolant flow rate and pump parameter on the flow field characteristics, temperature and wavefront distributions of the YAG disk are also studied. Numerical simulation results reveal that the temperature distribution of the laser medium is closely related to the viscous effect in the solid-liquid boundary layer. Although the heat deposition distribution of the laser medium is symmetrical, the temperature profile is asymmetrical as a result of the increasing water temperature along the water flow. The maximum temperature rise of the disk is at the outlet end, and the position remains almost unchanged. The front-surface temperature distributions and wavefront profiles of Nd:YAG vary nonlinearly with the coolant flow rates, but linearly with the pump parameter. Model predictions show that when the laser amplifier operates at a repetition rate of 50 Hz, the thermal diffusion of the coolant mainly occurs in a range of 100 μm, and the maximum temperature difference of the coolant reaches up to 10.85 ℃. Correspondingly, the maximum temperature variation over the front-surface active region is less than 4 ℃, with an average temperature of 49.62 ℃, which leads to a total peak-to-valley wave front distortion of 7.27 λ. The experimentally measured temperature distributions are in reasonable agreement with numerical simulations. The research results are beneficial to designing and optimizing the high-energy, high-repetition rate water-cooled Nd:YAG active mirror amplifiers.