Isothiazole derivatives are widely used in industrial and agricultural applications due to their biocidal properties. They serve as key active ingredients in biocides to prevent microbial growth in water-based systems such as cooling towers, paper mills, and metalworking fluids. These compounds effectively inhibit bacteria, fungi, and algae, helping to control spoilage and maintain system integrity. They are also employed as preservatives in cosmetics and paints.

In agriculture, isothiazole-based chemicals are used as preservatives and protective agents in crop protection formulations. They help extend shelf life and prevent microbial contamination in pesticide and herbicide solutions.

Additionally, isothiazole scaffolds are important in pharmaceutical research. Their structural motif appears in compounds with antimicrobial, anti-inflammatory, and anticancer activities, making them valuable in drug discovery and development.