The invention discloses a micro-grid relay protection and automation integrated intelligent protection system. The system analyzes the running state of a micro-grid in advance by acquiring the running information of all equipments in the micro-grid; and when the running mode of the micro-grid changes, the micro-grid intelligent protection system acquires a latest running mode by analyzing and sends the latest running mode to each intelligent equipment in the micro-grid through a communication network, and the intelligent equipment automatically switches to the setting corresponding to the current running mode according to the current running mode. The equipment in the micro-grid intelligent protection system can be adaptively adjusted according to the change of the running mode of the micro-grid, thereby solving the problem that in a grid connected mode and an isolated grid mode of the micro-grid, relay protection and automation devices are not corresponding. The system also integrates the mode conversion control of the micro-grid simultaneously, thereby realizing the integration of relay protection and automation of the micro-grid.