Ethyl 6-chloro-5-fluoro-1H-indole-2-carboxylate is primarily used in pharmaceutical research and development. It serves as a key intermediate in the synthesis of various biologically active compounds, particularly those targeting therapeutic areas such as oncology and neurology. Its indole core structure is valuable for designing molecules that interact with specific enzymes or receptors, making it useful in drug discovery efforts. Additionally, it may be employed in the preparation of agrochemicals, where its derivatives could exhibit pesticidal or herbicidal properties. Researchers also utilize this compound in organic synthesis to explore novel chemical reactions and pathways.