This study investigates the application of Unmanned Aerial Vehicles (UAVs) equipped with a Micasense RedEdge-MX multispectral camera for the estimation of Secchi Depth (SD) in inland water bodies. The research analyzed and compared five sun-glint correction methodologies — Hedley, Goodman, Lyzenga, Joyce, and threshold removed glint to model the SD values derived from UAV multispectral imagery, highlighting the role of reflectance accuracy and algorithmic precision in SD modeling. While Goodman's method showed a higher correlation (0.92) with in situ SD measurements, Hedley's method exhibited the smallest average deviation (0.65 m), suggesting its potential in water resource management, environmental monitoring, and ecological modeling. The study also underscored the Quasi-Analytical Algorithm (QAA) potential in estimating SD due to its flexibility to process data from various sensors without requiring in situ measurements, offering scalability for large-scale water quality surveys. The accuracy of SD measures, calculated using QAA, was related to variability in water constituents of coloured dissolved organic matter and the solar zenith angle. A practical workflow for SD acquisition using UAVs and multispectral data was proposed for monitoring inland water bodies.