In this paper we deal with two design methods of adaptive flight control system with stochastic disturbances. The first method ensures to make the expected output error zero asymptotically and the other is based upon the minimum variance control. Both methods are designed via polynomial algebraic method which is a good tool to construct the control system easily. These methods are applied to the flight control system of a small-size high-performance aircraft and numerical simulations under the stochastic environment can be shown to justify the proposed shemes.