Purpose/Significance To explore the application of system integration dual active technology in medical big data security protection.Method/Process The comparative study method is adopted to analyze the advantages and disadvantages of three commonly used dual active technologies from the aspects of construction complexity, protection content, support mode, application effect, etc., and it proposes technical application solutions for different security protection requirements and scenarios.Result/Conclusion The data protection effects achieved by the dual active technology of system integration at different levels are different. The core business system should adopt the integration of the database side and the dual write dual active system based on the underlying storage; general business systems should adopt the dual write dual active system integration architecture and virtual machine technology integration; special business applications should adopt the single write dual active system integration of the underlying storage hardware, which can achieve the security protection of medical big data with a high cost performance ratio and improve data security.