Objectives: Soluble programmed death-1 (sPD-1) and its ligand (sPD-L1) take part in some autoimmune diseases. Little is known about its role in systemic idiopathic arthritis (sJIA). The study aimed to explore the sPD-1 and sPD-L1 levels in sJIA patiens and elucidate their underlying immunomodulatory mechanisms. Methods: Plasma levels of sPD-1, sPD-L1 and related cytokines were detected in sJIA patients and healthy controls (HCs) using an enzyme-linked immunosorbent assay (ELISA) and Luminex. The correlation of sPD-1/sPD-L1 with clinical characteristics, laboratory parameters and pro-inflammatory cytokines level of patients were analyzed. The effects of PD-1/PD-L1 signal on T cell differentiation and IL-6 secretion were measured using flow cytometry. Results: The data revealed decreased levels of sPD-1 in active sJIA patients, and it negatively correlated with JADAS-27, PGA, PtGA and CRP. While the sPD-L1 level was positively correlated with Ferritin, S100A8, IL-6, IL-18, IL-1β and TNF-α level. Moreover, the sPD-1 and sPD-1/sPD-L1 could be sJIA diagnosis and IL-6R inhibitor treatment marker in patients. The vitro experiments showed that when blocking PD-1/PD-L1 signal, IFN-γ and IL-6 secretion were increased. Conclusions: Our finding displayed decreased sPD-1 in active sJIA patients, which could be a new biomarker for differential diagnosis and critical to further elucidating the pathophysiological mechanism of sJIA.