Skin health and protection are paramount in the pursuit of well‐being and beauty. In this study, we introduce an innovative approach to develop skin protectant agents by nanocomposites derived from natural sources, involves the synthesis of selenium nanoparticles (SeNPs) using squash plant mucilage (SqM), and their integration with nano chitosan (NCht) to create a stable, antimicrobial and efficacious composite. The interactions between nanomaterials were proved via infra‐red analysis and electron microscopy. The SqM‐biosynthesized SeNPs had 11.47 nm diameter. Different blends were nanocomposited from NCht and SqM/SeNPs; the NC‐2 nanocomposite (with equal ratios from them) had mean diameter of 241.38 nm and negatively charged. The antimicrobial actions of produced nanomaterials/nanocomposites were validated against skin pathogens, Staphylococcus aureus and Candida albicans, using antimicrobial assays and electron microscopy. The most effectual antimicrobial was NC‐2; the loading of it onto cotton textile provided potent antimicrobial fabrics toward both skin pathogens. The innovative biosynthesis of SeNPs using SqM and their nanocompositing with NCht provided pioneering powerful antimicrobial complexes to control skin pathogens, either through direct interaction or by fabricating hygienic antimicrobial textiles.