The unsteady hypersonic flow under finite amplitude pulse entropy perturbation at different freestream temperatures was calculated by direct numerical simulation. The flow response characteristics under the perturbation of entropy waves in freestreaming are analyzed. The temperature effect of freestreaming is studied based on the sensitivity of the boundary layer caused by pulse entropy perturbation. The results show that the higher freestream temperature promotes the first growth of the above third-order modes after leaving the head region, and strongly inhibits the first attenuation. The influence of the freestream temperature on the evolution of the induced disturbance wave is more significant than that on the development of the main flow disturbance waves. Low freestream temperature can suppress the attenuation of the modes below the second order. As the disturbance wave evolves downstream, the frequency band of the finite frequency disturbance wave gradually narrows, and the frequency band narrows faster when the temperature of freestreaming is low than when the temperature of freestreaming is high.