The invention discloses a maritime intermediate frequency wireless sea chart updating system and a method thereof. The system comprises the components of a broadcast control terminal which transmits all sea chart broadcast files to a data server that transmits a to-be-published file to a shore-based broadcast station; the shore-based broadcast station which receives a sea chart broadcast file from the data server, converts the sea chart broadcast file to an OFDM signal, and receives broadcast of the terminal through an intermediate-frequency radio signal; and a sea chart receiving terminal which restores the receives signal to a correct sea chart updating file through an antenna and a receiver by means of data processing, wherein the broadcast control terminal is connected with the shore-based broadcast station through a shore-based network. The shore-based broadcast station is connected with the sea chart receiving terminal through a wireless transmission channel. According to the maritime intermediate frequency wireless sea chart updating system and the method thereof, the sea chart file can be conveniently transmitted; the maritime intermediate frequency wireless sea chart updating system is seamlessly connected with a ship information system and equipment; and furthermore high broadcast efficiency and wide coverage are realized.