Accurate estimation of aboveground carbon stock for individual trees is important for evaluating forest carbon sequestration potential and maintaining ecosystem carbon balance. Airborne light detection and ranging (LiDAR) data has been widely used to estimate tree-level carbon stock. However, few studies have explored the potential of combining LiDAR and hyperspectral data to estimate tree-level carbon stock. The objective of this study is to explore the potential of integrating unmanned aerial vehicle (UAV) LiDAR with hyperspectral data for tree-level aboveground carbon stock estimation. To achieve this goal, we first delineated individual trees by a CHM-based watershed segmentation algorithm. We then extracted structural and spectral features from UAV LiDAR and hyperspectral data respectively. Then, Pearson correlation analysis was conducted to assess the correlation between LiDAR features, hyperspectral features, and tree-level carbon stock, based on which, features were selected for model development. Finally, we developed tree-level carbon stock estimation models based on the Schumacher–Hall formula and stepwise multiple regression. Results showed that both LiDAR and hyperspectral features were strongly correlated to tree-level carbon stock. Both tree height (H, r = 0.75) and Green index (GI, r = 0.83) had the highest correlation coefficients with tree-level carbon stock in LiDAR and hyperspectral features, respectively. The best model using LiDAR features alone includes the metrics of H, the 10th height percentile of points (PH10), and mean height of points (Hmean), and can explain 74% of the variations in tree-level carbon stock. Similarly, the best model using hyperspectral data includes GI and modified normalized differential vegetation index (mNDVI), and has similar explanatory power (r2 = 0.75). The model that integrates predictors, namely, GI and the 95th height percentile of points (PH95) from hyperspectral and LiDAR data, substantially improves the explanatory power (r2 = 0.89). These results indicated that while either LiDAR data or hyperspectral data alone can estimate tree-level carbon stock with reasonable accuracy, combining LiDAR and hyperspectral features can substantially improve the explanatory power of the model. Such results suggested that tree-level carbon stock estimation can greatly benefit from the complementary nature of LiDAR-detected structural characteristics and hyperspectral-captured spectral information of vegetation.