River water samples between August 2017 (wet season) and March 2018 (dry season) from the Mun River Basin in northeast Thailand were collected and their dissolved heavy metals concentrations (Al, Mn, Fe, Cu, Zn, and Ba) were measured. Compared with international drinking water guidelines, Mn was the dominant pollutant in the dry season. The correlation analysis (CA) suggested that similar sources were shown in each element pair of Al-Fe, Mn-Zn, and Fe-Ba in both seasons. The principal component analysis (PCA) results showed that the dominant source of dissolved heavy metals was sedimentary inputs or colloid destabilization in the wet season, while anthropogenic inputs were the main sources in the dry season, such as agricultural runoff, industrial effluents, and domestic discharge. On the basis of water quality index (WQI), water at most sites in the wet and dry seasons can be categorized as excellent water, except for a few sites with substandard values. The river water posed no significant health risks according to the health risk assessment, but Mn, Fe, and Ba needed to be paid more attention due to the relatively high values. Al, Fe, and Ba were the main dissolved heavy metals flowing into the Mekong River, and Cu contributed to the background value in the Mekong river.