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Intense and frequent drought events strongly affect plant survival. Non-structural carbohydrates (NSCs) are important “buffers” to maintain plant functions under drought conditions. We conducted a drought manipulation experiment using three-year-old Pinus tabulaeformis Carr. seedlings. The seedlings were first treated under different drought intensities (i.e., no irrigation, severe, and moderate) for 50 days, and then they were re-watered for 25 days to explore the dynamics of NSCs in the leaves, twigs, stems, and roots. The results showed that the no irrigation and severe drought treatments significantly reduced photosynthetic rate by 93.9% and 32.6% for 30 days, respectively, leading to the depletion of the starch storage for hydraulic repair, osmotic adjustment, and plant metabolism. The seedlings under moderate drought condition also exhibited starch storage consumption in leaves and twigs. After re-watering, the reduced photosynthetic rate recovered to the control level within five days in the severe drought group but showed no sign of recovery in the no irrigation group. The seedlings under the severe and moderate drought conditions tended to invest newly fixed C to starch storage and hydraulic repair instead of growth due to the “drought legacy effect”. Our findings suggest the depletion and recovery of starch storage are important strategies for P. tabulaeformis seedlings, and they may play key roles in plant resistance and resilience under environmental stress.