The invention relates to a reactive power compensation control method of three-phase unbalance system, comprises steps of: taking pressure or current of three-phase pressure or current to count reactive power Qa, Qb, Qc and active power Pa, Pb and Pc, respectively; setting and counting a Y compensatory part Qa, Qb, Qc required by a load Delta connection part and a Y compensatory part Qab, Qbc, Qca required by a load Y connection part and then obtaining a compensation formula; making three-phase power factor close to 1 and making three-phase reactive current balance to reduce usage quantity of capacitance, adjusting Q to make compensation effect and capacitance arrangement reach optimum; comparing and judging the reactive power of the three-phase unbalance system and counting scope, and compensating capacitance of the reactive power of the three-phase unbalance system. Using the system and the method provided by the invention, asymmetric loads are scattered into different outlet points to reduce out of limits of asymmetry caused by centralized connection.