The invention discloses a control method of a copper-molybdenum loss and dilution rate. The control method comprises the steps of strengthening geological guidance to production, improving veracity of geological information, using software to establish a three-dimensional model of an ore body, a rock body and a structure, establishing an ore block grade model and a grade control system, optimizing designing of separate penetration and separate blasting of an ore rock, conducting track management on an site operation, studying a loose rule of a muck pile, designing setting-out of ore rock boundary lines, adopting a production controlling platform to achieve 24-hour-unintermittent intelligent monitoring on the site operation. According to the control method of the copper-molybdenum ore loss and dilution rate, multiple methods are adopted, so that the ore loss and dilution rate is effectively controlled, grade of selected ore rock is indirectly improved, ore selection cost is saved, the resource utilization rate is improved, and costs are decreased and benefits of over ten million RMB are increased for enterprises annually.