An important historical monument of Cyprus is an aqueduct that was built in 1747 to provide water to the city of Larnaca and to its port. Because of its importance to the cultural heritage of Cyprus, the aqueduct has been selected as one of the case-study monuments in the project Wide-Range Non-Intrusive devices toward Conservation of Historical Monuments in the Mediterranean Area (WIND-CHIME). Detailed drawings of the aqueduct obtained from the Department of Antiquities of Cyprus have been used for the development of a computational model. The model was fine-tuned through the measurement of the dynamic characteristics of the aqueduct using forced and ambient vibrations. It should be noted that measurement of the dynamic characteristics of the structure were performed twice in a period of three years (June of 2004 and May of 2007). Significant differences were noted and they are attributed to soil structure interaction effects due to seasonal variations of the water-level in a nearby salt-lake. The system identification results for both cases are presented here. This monument was used to test the effectiveness of shape memory alloy (SMA) pre-stressed devices, which were developed during the course of the project, in protecting it without spoiling its monumental value.