Disclosed are an automatic medicine warehousing and releasing management system and a method of automatically warehousing and releasing medicines thereof. Warehoused medicines are arranged at proper positions on a storage shelf, and released medicines are discharged from the storage shelf. The automatic medicine warehousing and releasing management system includes a medicine holding and transferring unit to arrange warehoused medicines on a storage rack by holding and accommodating the warehoused medicines according to holding priorities of the medicines based on sizes and expiration dates of the medicines, and release the medicines by holding and accommodating the medicines on the storage rack according to the holding priorities of the medicines, and a medicine warehousing and releasing control unit connected with the medicine holding and transferring unit to control the arranging of medicines requested for warehousing on the storage rack and the discharging of medicines requested for releasing from the storage rack.