The invention discloses a pulse sterilization continuous box type modified atmosphere packaging machine. The modified atmosphere packaging machine comprises a transmission system, a packaging system and a film sealing system and further comprises a control system, wherein the transmission system, the packaging system and the film sealing system are installed on a rack, a sterilization system is installed at the front end of the transmission system, and the packaging system comprises a film sealing device, a gas replacement device, a hot-sealing device and a cutting device. With the method, the modified atmosphere packaging machine is simple in structure, capable of performing continuous sterilization and continuous and automatic modified atmosphere packaging on products through a small number of work stations, high in packaging speed and capable of achieving the high gas replacement rate and the high gas mixing accuracy.