Adjusting the flow distribution of a combustor by changing the arrangement of jet holes is an important design method to improve the combustion performance of the combustor. Based on the geometrical model and initial simulation results of the micro-combustor in development, the flow-pressure mathematical model of the combustor was established, and a flow rate scaling fitting method was proposed to replace a lot of simulation by calculation, so as to reduce the costs of obtaining the local flow law of the hole. Furthermore, according to the flow-pressure mathematical model of combustor and the local flow law of hole, a jet hole arrangement scheme was designed to meet the requirements of target flow distribution. The results show that the relative error between the flow rate of each row of jet holes in the designed combustor and the target flow rate is reduced to less than 5% in only two times of the design calculation process by using this method, even if the flow rate distribution error of initial example is large. Compared with the traditional method, this method needs less data to summarize the local flow law of hole, and it takes into account the influence of the overall geometry of combustor on the transverse jet.