The invention provides an SOA-based comprehensive enterprise level information system operation and maintenance management method. The method comprises steps: modular system integration is carried out; functions of the system are packaged to services; an information index early warning threshold is made; system operation, service data integration, cleaning and relevance are carried out; acquired data are judged whether to exceed the early warning threshold; and early warning threshold is carried out. Heterogeneous information system integration is realized based on an SOA architecture, the effective integration problem of operation and maintenance work by the information system is solved, the operation and maintenance ability of the information system is enhanced fully, and lean resource configuration of the information system is realized via a comprehensive monitoring mode. With the help of the prior EBS service bus, the Web service, XML and other technical means, separation of business and service is realized, data cleaning and escape rules are made, the data format of the heterogeneous information system is unified, message interaction barriers are eliminated, and according to the pre-defined early warning information and the key index decision making model, system operation and business operation situations are analyzed, and decision making basis is provided for operation and maintenance management and business services.