Aboveground carbon stocks (AGCs) in forests play an important role in understanding carbon cycle processes. The global forestry sector has been working to find fast and accurate methods to estimate forest AGCs and implement dynamic monitoring. The aim of this study was to explore the effects of backpack LiDAR and UAV multispectral imagery on AGC estimation for two tree species (Larix gmelinii and Betula platyphylla) and to emphasize the accuracy of the models used. We estimated the AGC of Larix gmelinii and B. platyphylla forests using multivariate stepwise linear regression and random forest regression models using backpack LiDAR data and multi-source remote sensing data, respectively, and compared them with measured data. This study revealed that (1) the diameter at breast height (DBH) extracted from backpack LiDAR and vegetation indices (RVI and GNDVI) extracted from UAV multispectral imagery proved to be extremely effective in modeling for estimating AGCs, significantly improving the accuracy of the model. (2) Random forest regression models estimated AGCs with higher precision (Xing’an larch R2 = 0.95, RMSE = 3.99; white birch R2 = 0.96, RMSE = 3.45) than multiple linear regression models (Xing’an larch R2 = 0.92, RMSE = 6.15; white birch R2 = 0.96, RMSE = 3.57). (3) After combining backpack LiDAR and UAV multispectral data, the estimation accuracy of AGCs for both tree species (Xing’an larch R2 = 0.95, white birch R2 = 0.96) improved by 2% compared to using backpack LiDAR alone (Xing’an larch R2 = 0.93, white birch R2 = 0.94).