The increasing pollution of river systems poses a significant challenge to water quality management and public health. This study was conducted to evaluate the water quality of the Gomati River in India, focusing on the impact of anthropogenic activities on pollution levels across different seasons. The primary objective was to develop a comprehensive assessment model using an effective weighted fuzzy soft expert system (WFSES) to derive a weighted water pollution score (WWP-score) for rating water pollution levels based on various water quality parameters. To achieve this, we employed a fuzzy soft set (FSS) methodology integrated with a weighted fuzzy soft set (WFSS) model to analyze water quality indices at six sampling stations along the Gomati River, the largest river in Tripura, India. Originating from the Raima and Sarma streams, the river flows westward through key regions, providing 249.39 million cubic meters of water annually, essential for drinking, agriculture, fishing, and transportation. The study utilized crisp data summaries of key water quality parameters, including pH, total dissolved solids, total suspended solids, electrical conductivity, biochemical oxygen demand, dissolved oxygen, total hardness, chloride, total alkalinity, and total coliform, across the pre-monsoon, monsoon, and post-monsoon seasons from May 2022 to April 2023, guided by the distribution of waste discharge points. Fuzzy membership functions were defined for these parameters, and the root mean square (RMSQR) operation was used to combine multiple FSSs. The results revealed that the WWP-scores, a measure of water quality, ranged from 0.744 to 0.872 across the sampling stations, with Srimantapur exhibiting the highest level of pollution and Udaipur showing comparatively better quality. These scores indicate that water quality at all sites falls into the poor category, with Srimantapur experiencing the most severe contamination due to high levels of coliform bacteria and organic pollutants. The analysis highlights the impact of domestic wastewater and agricultural runoff on the river's health. This research offers a novel application of FSS and WFSS theory in environmental management, providing a robust framework for evaluating and ranking water quality across multiple parameters. The findings are valuable to the scientific community as they offer detailed insights into the pollution dynamics of the Gomati River and propose a methodological approach for assessing water quality in other river systems facing similar challenges. The study's results underscore the need for targeted pollution control measures and continuous monitoring to safeguard water resources and public health.