Methyl 4-chloro-3-cyanobenzoate is primarily used as an intermediate in the synthesis of various organic compounds. It plays a crucial role in the production of pharmaceuticals, particularly in the development of active pharmaceutical ingredients (APIs). Its structure allows it to act as a building block for creating more complex molecules, especially those with potential therapeutic properties.

In agrochemical research, this compound is utilized in the development of pesticides and herbicides. Its chemical properties make it suitable for modifying and enhancing the efficacy of these agricultural products. Additionally, it is employed in the synthesis of dyes and pigments, contributing to the creation of colorants for industrial applications.

Researchers also use methyl 4-chloro-3-cyanobenzoate in organic chemistry studies to explore new reaction pathways and develop novel chemical entities. Its versatility and reactivity make it a valuable tool in both academic and industrial laboratories for advancing chemical innovation.