2-Methoxy-1,4-naphthoquinone is primarily used in research and industrial applications due to its biological and chemical properties. It serves as a key intermediate in the synthesis of various organic compounds, particularly those with potential pharmaceutical activities. Its quinone structure makes it useful in studies related to redox reactions and electron transfer processes. Additionally, it has been explored for its antimicrobial and antifungal properties, making it a candidate for developing new therapeutic agents. In agriculture, it is investigated for its potential as a natural pesticide or growth regulator. Its ability to interact with biological systems also makes it valuable in biochemical research, particularly in understanding oxidative stress and cellular mechanisms.