In order to address the risk of information leakage in physical layer software, the author proposes the application of hybrid encryption algorithms in physical layer software control. First of all, on the basis of the successful construction of the hardware platform, select the baseband chip of the encryption terminal, calculate the block cipher in the symmetric encryption algorithm, and establish a RAS cryptosystem to encrypt the transmission system in a mixed way, so as to realize the loss prevention transmission of user information data. The experimental results showed that the accuracy of the first transmission experiment reached 98.5%. After multiple experiments, it was concluded that the accuracy of network transmission systems using hybrid encryption algorithms is relatively higher than traditional methods in the process of information and data transmission. In the previous experiment, the accuracy could still reach 98%, which proves that the accuracy of information transmission has significantly improved compared to traditional methods. It has been proven that compared with traditional network transmission systems, the transmission accuracy of the designed transmission system is significantly improved, effectively avoiding the loss of important data information for users.