MDO (Multidisciplinary Design Optimization) methodology is an emerging new technology to solve a complicate structural analysis and design problem with a large number of design variables and constraints. In this paper MDO methodology is adopted through the use of computer aided systems such as Geometric Solid Modeller, Mesh Generator, CAD system and CAE system. And this paper introduces MDO methodology as a new method for structural analysis and design through the application to the structural design of flap drive system. In a MDO methodology application to the structural design of flap drive system, kinetodynamic analysis is done using a simple aerodynamic analysis model for the air flow over the flap surface instead of difficult aerodynamic analysis. Simultaneously the structural static analysis is done to obtain the optimum structural condition. And the structural buckling analysis for push pull rod is also done to confirm the optimum structural condition (optimum cross section shape of push pull rod).