The embodiment of the invention provides a method and a system for solving a virtual grounding fault of a generator stator in a load direct supply system. The parameters of the load direct supply system are obtained, and an action interface of generator stator grounding and load side voltage unbalance protection is determined by setting a grounding protection constant value of the generator statoraccording to the obtained parameters of the load direct supply system; an action logic protected by the load direct supply system is determined by executing a high-voltage circuit breaker in a delaymanner, increasing difference in the stator grounding protection action time and adding an alarm time difference on the load side; and the compensation share of the load direct supply system is determined by selectively setting an arc suppression coil, adjusting residual current and off tuning degree or compensating capacitance current during grounding for the operating mode of the load direct supply system. Moreover, zero sequence current protection is set at the position of a switch in a load side circuit according to a current constant value. The virtual grounding protection false operationproblem of the generator stator can be solved effectively through the method.