The invention discloses a subseasonal-seasonal-interannual scale integrated climate model ensemble prediction system, including an initialization module, a high-resolution climate model module, an ensemble prediction module and a post-prediction processing module. The initialization module is used for downloading, extracting and processing the included Multi-source data of the atmosphere, land surface, ocean, and sea ice, using external parameters to control and realize data selection, inspection, horizontal and vertical interpolation of meteorological elements and other pre-processing, suitable for data pre-processing of all climate model operations, high resolution The climate model module is used to objectively and quantitatively predict the coupled and coordinated changes of the atmosphere, land surface, ocean, and sea ice. The ensemble prediction module is used to generate any number of ensembles that combine random disturbances of physical parameters and initial value time lag methods. Predict sample membership. The invention provides a multi-time-scale and multi-space-scale climate prediction of the atmosphere, land surface, ocean and sea ice with high resolution, high prediction accuracy and good maneuverability.