Benzyl (methoxymethyl)carbamate is primarily utilized in organic synthesis as a protective group for amines. Its application is particularly significant in peptide chemistry, where it helps safeguard amino groups during complex reactions, ensuring selective transformations without unwanted side reactions. This compound is also employed in the development of pharmaceuticals, where it aids in the synthesis of active ingredients by maintaining the integrity of amine functionalities. Additionally, it finds use in the preparation of fine chemicals and intermediates, contributing to the production of various specialty compounds in industrial and research settings.