As a traditional Mongolian medicine, pearls exhibit significant pharmacological effects and unique therapeutic benefits. However, issues such as the unclear foundation of active ingredients and therapeutic substances greatly limit the development of new drugs and clinical applications. With continuous innovations in nanotechnology since the 1990s, its applications in the field of medicine have gradually matured. This paper, based on the summarization and organization of nanotechnology, focuses on describing the advantages and characteristics of using the biological enzyme cutting method to prepare pearl nanoparticles. By refining the particle size of pearl powder to the nanoscale using enzyme cutting, the dissolution rate and absorptivity of the drug can be effectively improved. This method shows unique therapeutic effects and applications in disease diagnosis, targeted treatment, bone formation materials, etc. Through the application of nanotechnology, the preparation quality, pharmacological effects, and safety evaluation of Mongolian medicinal pearl powder can be further enhanced, providing technical support and assurance for its extensive use in the medical field.