Abstract: This paper proposes a highly secure method of boot security authentication, involving one embedded micro-Linux system stored in the disk driver being the authentication carrier and one USB removable media being a KEY startup disk to save boot data and key disk. This approach implemented the independent storage of important information such as key, start-up and disk original data. Also, it can employ high-performance MD5 and DES encryption algorithms based on micro-Linux system, thus greatly increasing the security of the boot authentication and effectively protecting the disk data.