Pollution of wetlands is a major environmental issue worldwide, threatening ecosystem functioning and services to human. Unfortunately, protected areas such as Ramsar sites are no exception. In this study, an assessement was conducted for the water quality of three swamps in ecocomplex of Guerbes-Sanhadja wetlands (north-eastern Algeria) classified as Ramsar site since 2001, namely Garaet Hadj Tahar, Garaet Messaouassa and Garaet Ben M'Hamed. 108 sampling events were achieved during a year from January to December 2021. Moreover, ten physico-chemical factors were measured including temperature, pH, dissolved oxygen, EC, TDS, nitrite (NO_2⁻), nitrate (NO_3⁻), chloride (Cl^-), calcium ( Ca2⁺) and magnesium (Mg2+). The overall concentration of Cl⁻, Ca2+ and Mg2+ at the study sites was  extremely high. Cl⁻ exceeded 440mg/ l in Ben M'Hamed swamp, while Mg2+ and Ca2+ showed concentrations reaching up to 390 and 212mg/ l in Hadj-Tahar swamp, respectively. Nitrate levels were below 40mg/ l at the three sites, meaning they did not exceed the permissible limit for surface waters. Water quality in most of our samples of all three sites fall in the good to permissible categories for aquatic life. It was deduced that, a regular monitoring of water quality of these three swamps is essential to preserve and protect these sensitive ecosystems from pollution and other anthropogenic disturbances.