Methyl pentafluorophenyl carbonate is primarily utilized as a reagent in organic synthesis, particularly in the formation of carbonates and carbamates. It is often employed in peptide coupling reactions, where it facilitates the introduction of protecting groups or activates carboxylic acids for amide bond formation. The compound is also used in the synthesis of pharmaceuticals and agrochemicals due to its ability to act as an efficient acylating agent. Additionally, its reactivity with nucleophiles makes it valuable in the preparation of various ester and carbonate derivatives, which are essential intermediates in the production of complex organic molecules. Its stability and selectivity under mild reaction conditions further enhance its applicability in fine chemical synthesis.