Water quality monitoring is crucial for ecological protection and water resource management. However, traditional monitoring methods suffer from limitations in temporal, spatial, and spectral resolution, which constrain the effective evaluation of urban rivers and multi-scale aquatic systems. To address challenges such as ecological heterogeneity, multi-scale complexity, and data noise, this paper proposes a deep learning framework, TL-Net, based on unmanned aerial vehicle (UAV) hyperspectral imagery, to estimate four water quality parameters: total nitrogen (TN), dissolved oxygen (DO), total suspended solids (TSS), and chlorophyll a (Chla); and to produce their spatial distribution maps. This framework integrates Transformer and long short-term memory (LSTM) networks, introduces a cross-temporal attention mechanism to enhance feature correlation, and incorporates an adaptive feature fusion module for dynamically weighted integration of local and global information. The experimental results demonstrate that TL-Net markedly outperforms conventional machine learning approaches, delivering consistently high predictive accuracy across all evaluated water quality parameters. Specifically, the model achieves an R² of 0.9938 for TN, a mean absolute error (MAE) of 0.0728 for DO, a root mean square error (RMSE) of 0.3881 for total TSS, and a mean absolute percentage error (MAPE) as low as 0.2568% for Chla. A spatial analysis reveals significant heterogeneity in water quality distribution across the study area, with natural water bodies exhibiting relatively uniform conditions, while the concentrations of TN and TSS are substantially elevated in aquaculture areas due to aquaculture activities. Overall, TL-Net significantly improves multi-parameter water quality prediction, captures fine-scale spatial variability, and offers a robust and scalable solution for inland aquatic ecosystem monitoring.