The present disclosure provides a method, an apparatus and a system for multi-module scheduling, capable of solving the problem associated with inconsistency in data inputted to a computing module in the multi-module scheduling technique in the related art. The method includes: reading, by a master process, a pre-stored configuration file storing a directed computation graph; initializing, by the master process, states of all the nodes and connecting edges in the directed computation graph initially in computation in a current computing period; determining a node to be called based on the computation direction in the directed computation graph and the states of the nodes, the node to be called comprising a node having all of its input edges in a complete state; transmitting, to the computing module in the slave process corresponding to the node to be called, a call request of Remote Process Call (RPC) to execute the computing module; updating the state of the node and the state of each output edge of the node upon receiving a response to the call request; and proceeding with a next computing period upon determining that the states of all the nodes have been updated.