The railroad's track is part of what was originally the Napa Valley Railroad founded by early California pioneer Samuel Brannan in 1864. Brannan established it to bring tourists to the resort town of Calistoga, California which he also founded. The railroad's of track ran from Calistoga to Vallejo, California where it connected with San Francisco Bay Area ferry boat service. California Pacific Railroad Extension Company purchased the Napa Valley Railroad Company at a foreclosure sale on June 9, 1869. Later that same year on December 23, the railroad was renamed the California Pacific Railroad. The track was leased to Southern Pacific Railroad on April 1, 1885 and was soon connected to their main line in Suisun, California. California Pacific Railroad was acquired by Southern Pacific on April 14, 1898. The line was extended to Benicia, California in 1904. The electric interurban railroad San Francisco, Napa and Calistoga Railway was built parallel to the NVRR and opened in 1905 until the 1930s. The NVRR track was utilized by Southern Pacific as a freight branch line for the following 58 years until 1987 when the railroad petitioned for abandonment.
