Smart UAV, which adopting tiltrotor aircraft concept, requires vertical take-off and landing, long endurance and high speed capability. These contradictable flight performances are hard to meet unless the operation of flap system which should reveal optimal performance for each flight mode. In order to design SUAV flaperon satisfying the three performance requirements, various configurations are generated and their aerodynamic performances are analyzed using numerical flow computations around flap systems. Considering aerodynamic performance and structural simplicity, a final flap configuration is selected and the performance is validated through the wind tunnel testing for 40% scale model.