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Along with information revolution and economy globalization, innovation assets becomes the core ability for shipping enterprises that could obtain the persistence competition dominance under the complex international shipping market. The paper puts forward the knowledge management performance evaluation index system for Chinese shipping enterprises based on the innovation assets, where includes technological innovation, organizational innovation and management innovation. The paper makes the questionnaire combining the open financial data choosing six typical shipping enterprises. At last, the paper uses DEA method to make the demonstration analysis. The result of principal component analysis and DEA analysis are beautifully validating the shipping enterprises competition evaluation index system based innovation assets.