A genetic algorithm has been developed to analyze layout options of military command spaces. It adopts a fitness function that reflects a human factors characterization of interoperator collaboration efficiency. A novel solution was proposed to examine command space layouts that involved unequal-sized workstations. The solution takes advantage of the unique parameter setup of the fitness function and converts an unequalsized facility layout problem into an equal-sized one by introducing the concept of a standard unit workspace. The effectiveness of this solution was investigated in a simulation experiment where the algorithm was used to analyze design options of a hypothetical operations room layout that involved a 9-person team with unequal workspace requirements. Based on 100 simulation runs, 24 unique layout options were identified by the algorithm and their optimality was confirmed by analytical examination. The proposed solution allows human factors practitioners to address the layout configuration of command spaces with complex workspace requirements.