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In this paper, the central Indian Ocean (60°–95°E, 0°–37°S) has been selected as the research area, and Argo salinity data are used as the measured values. The Catboost algorithm is introduced for the first time to retrieve sea surface salinity, and a comparison is made with the traditional artificial neural network (ANN) and random forest (RF) machine learning algorithm. The results show that: (1) Through linear fitting with the Argo salinity, the R2 of the three machine learning methods are 0.9299, 0.88 and 0.83, respectively. The corresponding RMSE were 0.2360, 0.3004, and 0.3156 psu, and MAE were 0.1816, 0.2486, and 0.2641 psu, respectively. (2) The spatial distribution of salinity of Argo and SMOS was compared with the inversion results of the model. It was found that the salinity of the sea area was lower at (83°–88°E, 24°–27°S) and (68°–72°E, 17°–20°S), and higher at 30°–35° south latitude, showing consistent with Argo. (3) The stability of the model was independently verified using the data from January to March 2020, and it was found that the R2 of the RF model shows the best stability, while the R2 of the ANN model shows the worst stability.