It is located in the Mission San Jose district of Fremont, California, United States.

[3] According to California School Dashboard, in 2017 MSJHS had 3.8% socioeconomically disadvantaged students and 3.1% English Learners out of its total population of 2003.

In 2023, 2024, 2025 Mission San Jose's Science Bowl team won Regionals and qualified for Nationals.

[9] At the Bay Area Science and Innovation Consortium WonderCup Challenge, MSJ has won in four years; three of those wins were in a row (2004–2006).

[10] Mission San Jose's Go team took first place at the California High School Go Championships three years in a row (2005–2007).

In 2010, Mission won first place in Division A at the newly formed Bay Area High School Go Tournament.

Most recently, the winter guard team placed third at the 2022 NCBA Winterguard Championship at Stockton in April 2022 for the Scholastic Regional A Division.