The Magong Harbor () is a harbor in Magong City, Penghu, Taiwan.
In 2015, Taiwan International Ports Corporation invested NT$1.1 billion to create the Penghu Pier to accommodate cruise liners, to make Magong Harbor a world class cruise terminal. The pier was expected to be launched in early 2018.
The harbor has 9 docks with total length of 956 meters.
The harbor serves boat trips to Kaohsiung, Tainan and Chiayi.