The construction scheme evaluation method of the C4ISR system are studied in this paper. Based on the analysis of the constuction process of the C4ISR system, the index system architecture is designed. The Kendall concordance coefficient test method and the weight calculation method based on distance optimization are combined to integrate the expert opinions more objectively. The evaluation method of comparative advantage relationship is improved by introducing the evaluation benchmark, which avoids the data normalization process and reduces the repeated calculation of the evaluated scheme in the incremental evaluation. The algorithm can be effectively applied to the incremental evaluation process and can also reduce the evaluation time cost when the number of schemes is large. Experimental analysis verifies the feasibility and effectiveness of the proposed method.