This paper proposes an algorithm for the initial alignment method for rocket navigation systems. It uses the inertial freezing alignment to resolve the attitude matrix with respect to its fast and robust characteristics. Due to disturbances from the swaying base environment, such as people walking and wind effect, which would consequently result in a great lever arm effect, a Finite Impulse Response (FIR) filter is utilized to decrease the noise in the accelerometers' measurement. In addition, there are sensor errors in the system; the online estimation of gyroscopes' drift with a Kalman filter is adopted to achieve compensation. Numerical results from a simulated rocket initial alignment experiment are reported to demonstrate the effectiveness of the method.