Subtropical China is projected to experience elevated temperature greater than the mean global temperature increase and is accompanied by reduced precipitation. The plasticity of roots to changing environment strongly influences ecosystem feedbacks to climate change. However, knowledge gaps on the individual and combined effects of warming and precipitation reduction on root systems hinder our ability to accurately predict the growth and adaptability of forests under future climate change. To examine the effects of warming (W) and precipitation reduction (P) on roots physiology and morphology of Chinese-fir saplings, we used a randomized complete block design with factorial soil warming (ambient, ambient + 5℃) and precipitation reduction (ambient, ambient-50%) treatments. A full excavation method was adopted to obtain roots, then we measured the root physiology (osmoregulatory substances, oxidant substances, protective enzymes, endogenous hormones), morphology (specific root length, SRL; surface root area, SRA; root tissue density, RTD). The content of carbon and nitrogen, isotopes (δ13C and δ15N); soil temperature, soil moisture and sapling growth were also measured. We found that compared with the control, W decreased the abscisic acid (IAA) content; P increased the contents of hydrogen peroxide (H2O2) and proline (Pro), and decreased the contents of IAA and cytokinin (CTK); warming plus precipitation reduction (WP) increased the Pro content, and decreased the contents of IAA and CTK. In addition, the effects of W and P on root morphology varied with soil depth and root diameter class. W, P, and WP all increased fine root SRL and SRA in deep soil. Warming and precipitation reduction could affect physiological traits (e.g. non-enzymatic substances and antioxidant enzymes) and subsequently morphological traits via influencing soil environment and root tissue chemistry. Collectively, the results indicated that Chinese-fir saplings responded to warming and precipitation reduction by comprehensive regulation of the non-enzymatic substances (e.g., osmotic substances and endogenous hormones) of fine roots and changing root morphological characteristics in deep soil.