In order to improve the security of digital archival information data, an archival privacy information encryption storage system based on multi-layer perception learning is designed. Make clear the requirements of the system, construct the overall framework design of the digital archives privacy information encryption storage system, and analyze the specific functions of the hardware modules such as data authentication, retrieval and management in the framework; Through the process design of encryption and decryption software of digital archives privacy information data, and through the noise removal of system data by multi-layer perception learning device, the encryption and storage of archives privacy information is realized. The experimental results show that the data loss rate is low, the encryption time is short, and the encryption storage effect is good when the system is used to encrypt and store the privacy information of digital archives.