The invention discloses a drilling method for achieving PCB high hole-site precision. The method comprises the following steps that firstly, a PCB is fixed on a workbench, secondly, the position to be drilled on the PCB is pre-drilled through a short-blade drilling tool, and thirdly, the position, to be drilled, processed in the second step is deep drilled through a long-blade drilling tool. The operation is easy and convenient and cost is low. The PCB is fixed in the first step, so that the PCB does not move during the drilling process, and the drilling precision cannot be affected. The position to be drilled on the PCB is pre-drilled through the short-blade drilling tool in the second step, and the rigidity of the short-blade drilling tool is better relative to the long-blade drilling tool, so that in the moment that the short-blade drilling tool makes contact with a PCB surface, the short-blade drilling tool is not prone to sliding. The position, to be drilled, processed in the second step is deep drilled through the long-blade drilling tool, the lateral sliding of the long-blade drilling tool during the drilling process is reduced, and therefore the drilling alignment of the long-blade drilling tool during the deep drilling process is guaranteed, and the drilled hole site can meet the requirement for the PCB high hole-site precision.