The time series data consist of the trajectory for one drifter, released on the 23rd April 2017, and two drifters released on 16th June 2017. The drifters were deployed off the southern coast of the Maltese Islands. These surveys were carried out as part of the Glider South project which had the aim to observe this relatively unexplored area of the Mediterranean Sea. This project was supported by the European Commission – H2020 Framework Programme, JERICO NEXT under grant agreement No. 654410.