Provided are a Docker virtual container micro-application platform system and operation method. The platform includes a basic cloud platform, a data management layer, an application service layer, an application demonstration layer, and an access layer; the basic cloud platform is equipped with a server management module, a network management module, a storage container module, and a Docker engine module; the data management layer is provided with a data extraction module, a data verification module, a data synchronization module, a data processing module, and a data monitoring module; the application service layer is provided with a flow service module, an interface management module, a flow object module, a statistical service module, a flow limit management module, and an organization module; and the application demonstration layer is provided with a business custom platform, a business test platform, and a business operation platform. The system and operation method have the advantages of lightweight resource usage, transplantability, predictability, and independence.