We propose an optimal design to improve the capacity by reducing the noise of the intake system. The length and radius of each component of the current Intake system are selected as control factors. We accept the output from computer simulator with orthogonal arrays. Then, the Kriging estimates are computed. From this, we exploit the optimal design of the intake system by adapting simulated annealing. From the results of this optimal design, we conclude that Kriging method with the orthogonal arrays is the efficient method for Design and Analysis of Computer Experiments and we propose the useful results for the low noise intake system.