Green synthesis of antimicrobial nanocomposites (NCs) offers a promising strategy to combat drug-resistant bacteria, a growing global health threat. In this work, we report the first-time green synthesis of CuO/TiO
2
@Chitosan NCs using
Matricaria chamomilla
extract, uniquely combining phytochemicals and a natural biopolymer in a single-step biosynthesis. An anthrone assay confirms that CuO/TiO
2
NC stability is due to carbohydrates, while the interaction of NCs with chitosan causes increased carbohydrate content. The addition of chitosan to CuO/TiO
2
NC increased their antioxidant activity and antibacterial efficacy. CuO/TiO
2
@Cs NC showed excellent antibacterial activity against
E. coli
,
S. typhimurium
,
B. cereus
,
S. aureus
, and
S. epidermidis
bacteria, and the results were between 12.0 ± 1.27 mm and 19.0 ± 1.60 mm. The antibacterial findings, on the other hand, confirmed that
M. chamomilla
extract and CuO/TiO
2
NC were not effective in inhibiting the growth of the bacterial strains. In addition, a molecular docking study was conducted to assess the interaction among phytochemicals of
M. chamomilla
with bacterial targets. Compared to similar nanocomposites in the literature, the CuO/TiO
2
@Chitosan NCs developed here demonstrate enhanced dispersion stability, biofunctional surface chemistry, and selective antibacterial activity against Gram-positive and Gram-negative strains, positioning them as competitive candidates for biomedical applications. This paper reports for the first time green synthesis of CuO/TiO
2
@Chitosan NCs from
M. chamomilla
extract, wherein phytochemicals complement chitosan to enhance antibacterial efficacy against multidrug-resistant bacteria. Although
M. chamomilla
has been used in a few instances in research for metal nanoparticle synthesis and antioxidant studies, its use in a CuO/TiO
2
-chitosan hybrid is novel. This work offers a green protocol and provides a baseline for further optimization and
in vivo
studies towards biomedical applications.