The invention relates to a method and system for processing service flows of a power converter. The method includes the following steps: (1) classifying the power communication service flows; (2) conducting classification flow statistics on the power communication service flows; (3) conducting abnormal recognition on power communication service messages; (4) conducting priority dividing on the power communication service flows; (5) distributing resources to the power communication service flows. The system comprises a service flow recognition module, a classification flow statistics module, a message characteristic recognition module, a service flow priority dividing module and a priority scheduling policy module. By means of the method and system, classification, classification flow statistics and abnormal message processing are carried out on the power communication service flows in the converter device, the resource distribution of the different service flows in the net-sharing and port-sharing networking mode is achieved, the net-sharing and port-sharing transmission requirements of a power communication service are met, and the effects of further simplifying the power communication network structure, reducing the construction cost and improving the network reliability are achieved.