The name of Marsaxlokk is derived from the words meaning South East Harbour. When the Phoenicians traveled straight from Tyre and Sidon (modern) Lebanon, they used to enter into this safe harbour and travel to the place known as Tas-Silġ, where, among other important buildings archeologists discovered remains of a Temple dedicated to Astarte.
Little is known about this village during the Middle Ages. During the hey day of the Turkish Empire however, when its warriors used to land and attack Zejtun, the village was practically deserted because of the danger of being killed or captured and sold as slaves. But as the power of the Turkish Empire and pratical attacks diminished, the village began to grown gradually. Today this village has grown and developed into a tourist attraction, with its simple lifestyle.