A system and method for securely storing and retrieving prescriptions. The system may include storage containers into which the prescriptions may be placed, a storage matrix with an outer housing and compartments for the storage containers, a transport system, scanners, and a control system. The transport system within the outer housing may selectively move the storage containers attached to the attachment device to locations or coordinates of any of the compartments. The control system may command the transport system to relocate any of the storage containers from one of the compartments to another of the compartments and may track locations of the prescriptions based on information from the scanners or other sensors for later retrieval by authorized user.