Chamomile, Matricaria chamomilla L., is a well-known medicinal herb. The purpose of this study was to determine the effect of chamomile aqueous extract on serum biochemical markers and testes histopathology in male Japanese quail. Quails (2 weeks old) were divided into two groups: the control group, which received no supplements, and the supplemented group, which received chamomile extract (3 mL/L) in their drinking water for 6 weeks. Chamomile extract's total flavonoids, phenols, and antioxidant potential were all determined. The total phenolic content of the extract was found to be 108.92 μg/ml, the total flavonoid content to be 66.41 μmol/ml, and the total antioxidant capacity to be 1.77 ng/ml. Japanese quails supplemented with chamomile aqueous extract gained weight and showed an improved testicular index compared to the control group. Chamomile extract improved total protein and albumin levels in the blood while lowering glucose levels. The supplemented quails exhibited a substantially higher percentage of spermatogenic epithelium and a much lower percentage of septa, according to stereometric analysis of histological sections. Chamomile extract can boost male Japanese quail reproductive function.