The networked command information system has become an important and necessary part of modern war. The evaluation of its effectiveness has become more and more concerned．To weight value of importance of each index, an improved analytical hierarchy process (AHP) based on the optimal transfer matrix is used．In the model，every index is quantitatively analyzed and the value of grey cluster of each subset effectiveness is calculated based on the grey cluster method and the result of experts．As a result，a quantitative evaluation of the effectiveness is achieved．Finally，as an example，the model is used to evaluate the effectiveness of a system，and the result shows that the model is of some practical value．