The design cycle associated with large engineering systems requires an initial decomposition of the complex system into design processes which are coupled through the transference of output data. Some of these design processes may be grouped into iterative subcycles. In analyzing or optimizing such a coupled system, it is essential to determine the best order of the processes within these subcycles to reduce design cycle time and cost. This is accomplished by decomposing large multidisciplinary problems into several sub design structure matrices (DSMs) and processing them in parallel This paper proposes a new method for parallel decomposition of multidisciplinary problems to improve design efficiency by using the multi-objective genetic algorithm and two sample test cases are presented to show the effect of the suggested decomposition method.