Accurate individual tree crown (ITC) segmentation is essential for quantifying forest fine carbon stocks. However, deep learning segmentation methods face prohibitive annotation costs while unsupervised algorithms struggle in structurally complex forests. This study proposes a semi-supervised framework integrating unsupervised pseudo-label generation, deep instance segmentation, and staged fine-tuning to overcome these limitations. The framework transforms outputs from marker-controlled watershed (MCWS) and region-growing (itcSegment) algorithms into initial training targets to obtain generalizable instance segmentation representations, then refines Mask R-CNN models with minimal manual annotations to enhance structural awareness of instance boundaries and semantic context understanding, significantly reducing labeling dependency while improving robustness. Validated across three structurally heterogeneous Chinese fir stands spanning age (11–67 years), density (450–2500 stems·ha−1), and elevation (192–1047 m) gradients, our UAV RGB-based framework achieved consistent superiority over LiDAR and fused inputs, with spectral-textural features proving dominant for boundary delineation. It attained F1-scores of 0.826 (young, undulating terrain), 0.836 (mature, high-density), and 0.711 (over-mature, occluded) using only 40 % expert annotations (0.6 personnel-hours), representing a 0.42 average improvement over MCWS/itcSegment baselines. The designed staged fine-tuning strategy effectively mitigated pseudo-label error propagation, while expanding this annotation effort to 70–100 % yielded marginal accuracy gains, demonstrating exceptional efficiency in leveraging minimal supervision. Based on the segmented crowns, structural parameters were extracted with high fidelity: crown diameter (R2 ≥ 0.76, rRMSE ≤ 11.3 %) and crown area (R2 ≥ 0.88, rRMSE ≤ 16.4 %). This approach reduces annotation demands while maintaining robustness across forest heterogeneity, enabling operationally scalable solutions for precision forestry.
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