Akrotiri Salt Lake is located 5 km west of the city of Lemesos in the southernmost part of the island of Cyprus. The evolution of the Akrotiri Salt Lake is of great scientific interest, occurring during the Holocene when eustatic and isostatic movements combined with local active tectonics and climate change developed a unique geomorphological environment. The Salt Lake today is a closed lagoon, which is depicted in Venetian maps as being connected to the sea, provides evidence of the geological setting and landscape evolution of the area. In this study, for the first time, we investigated the development of the Akrotiri Salt Lake through a series of three cores which penetrated the Holocene sediment sequence. Sedimentological and micropaleontological analyses, as well as geochronological studies were performed on the deposited sediments, identifying the complexity of the evolution of the Salt Lake and the progressive change of the area from a maritime space to an open bay and finally to a closed salt lake.