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High-mountain water bodies represent critical components of their ecosystems, serving as vital freshwater reservoirs, environmental regulators, and sentinels of climate change. To understand the environmental dynamics of these regions, comprehensive analyses of lakes across spatial and temporal scales are necessary. While remote sensing offers a powerful tool for lake monitoring, applications in high-mountain terrain present unique challenges. The Ancash and Cuzco regions of the Peruvian Andes exemplify these challenges. These regions harbor numerous high-mountain lakes, which are crucial for fresh water supply and environmental regulation. This paper presents an exploratory examination of remote sensing techniques for lake monitoring in the Ancash and Cuzco regions of the Peruvian Andes. The study compares three deep learning models for lake segmentation: the well-established DeepWaterMapV2 and WatNet models and the adapted WaterSegDiff model, which is based on a combination of diffusion and transformation mechanisms specifically conditioned for lake segmentation. In addition, the Normalized Difference Water Index (NDWI) with Otsu thresholding is used for comparison purposes. To capture lakes across these regions, a new dataset was created with Landsat-8 multispectral imagery (bands 2–7) from 2013 to 2023. Quantitative and qualitative analyses were performed using metrics such as Mean Intersection over Union (MIoU), Pixel Accuracy (PA), and F1 Score. The results achieved indicate equivalent performance of DeepWaterMapV2 and WatNet encoder–decoder architectures, achieving adequate lake segmentation despite the challenging geographical and atmospheric conditions inherent in high-mountain environments. In the qualitative analysis, the behavior of the WaterSegDiff model was considered promising for the proposed application. Considering that WatNet is less computationally complex, with 3.4 million parameters, this architecture becomes the most pertinent to implement. Additionally, a detailed temporal analysis of Lake Singrenacocha in the Vilcanota Mountains was conducted, pointing out the more significant behavior of the WatNet model. [ABSTRACT FROM AUTHOR]