|Owner(s)||MediaNews Group, et al.|
|Founded||March 23, 1861|
|Headquarters||4000 Civic Center Dr #301|
San Rafael, California
|Sister newspapers||San Jose Mercury News, Santa Cruz Sentinel, East Bay Times|
The Independent Journal was formed from the merger of the Marin Journal and the San Rafael Daily Independent in 1948. The weekly Journal, one of the state's oldest newspapers, had been established in 1861 as the Marin County Journal. The Journal was published in San Rafael on Saturdays by Jerome A. Barney. The Independent had been started by Harry Granice in 1900 as the weekly San Rafael Independent, which became a daily by 1903 under the management of his daughter, Celeste Granice Murphy. The merged paper was originally called the San Rafael Independent-Journal.
Gannett acquired the paper from the Brown family in 1980. MediaNews Group acquired the paper from Gannett in 2000. Gannett turned over the newspaper to a partnership headed by Dean Singleton and it is now owned and operated by a company made up of investment bankers.
The "hot-tubber" incident
In 2002, former President George H. W. Bush described "American Taliban" John Walker Lindh as "some misguided Marin County hot-tubber." His comment prompted criticism among readers of the Marin Independent Journal, until Bush sent the paper a letter of apology:
- Call off the dogs, please. I surrender...I apologize. I am chastened and will never use 'hot tub' and 'Marin county' in the same sentence again.
The publisher and president of the Marin Independent Journal is Rob Devincenzi. Previous to this position, Devincenzi was named editor and publisher of several South Bay weekly newspapers. 
The Independent Journal won two first-place awards, three second-place awards and six "honorable mention" awards in the annual California News Publishers Association Better Newspapers Contest for 2016.
Of these awards, The Independent Journal won second place in the breaking news category for a report of a mudslide in Sausalito in 2019. It won a third-place award for an editorial by Brad Breithaupt and a news photo by Alan Dep. Dep was also awarded a fourth-place award for feature photography alongside George Russel for editorial illustration 
- Advertise, Gallup Research - Media Usage 2004 and 2006, DataQuick Information Systems, from Marin Independent Journal website, retrieved 09.23.07
- James Munro-Fraser, History of Marin County, California, "History Of San Rafael Township, Part 1," 1880 Archived 2011-07-19 at the Wayback Machine, accessed June 7, 2008
- California Newspaper Publishers Association, California Press Association Hall of Fame, "Justus F. Craemer, San Rafael Independent-Journal, Orange Daily News, 1886-1966"[permanent dead link], accessed June 6, 2008
- California Newspaper Publishers Association, California Press Association Hall of Fame, "Celeste Granice Murphy, The Sonoma Index-Tribune, 1882-1962 "[permanent dead link], accessed June 6, 2008
- "From hot tub to hot water" | World news | guardian.co.uk
- "Gale - Institution Finder". galeapps.gale.com. Retrieved 2021-03-24.
- "2019 California Journalism Awards". cnpa.com. Retrieved 2021-03-24.