2-Chloro-3-iodo-6-methoxypyridine is primarily utilized as a versatile intermediate in organic synthesis, particularly in the development of pharmaceuticals and agrochemicals. Its structure allows for further functionalization, making it valuable in the construction of complex molecules. The compound is often employed in cross-coupling reactions, such as Suzuki or Sonogashira couplings, to introduce pyridine-based moieties into target compounds. Additionally, it serves as a building block in the synthesis of biologically active compounds, including potential drug candidates targeting various diseases. Its halogenated and methoxy groups enhance reactivity, enabling precise modifications for specific applications in medicinal chemistry and material science.