Father Patrick Power, Pastor of St. Michael Church, with the aid of his parishioners, raised enough money to purchase land and build a school in 1913. St. Michael Academy was dedicated on September 21, 1913 and staffed by the Sisters of St. Dominican from San Rafael. The school opened with 30 pupils in grades one through seven. The two-story building, now the former Parish Education Center, contained classrooms, sisters' living quarters, and a chapel. Enrollment grew to 120 students by 1916, and in 1918, six sisters staffed the school with 52 boys and 77 girls.

The school was small in the early years due to the scattered population of the valley. In 1932, there were only 162 registered. The parish saw an influx of new families from 1946 to 1951, because of returning troops and California Research and Development employees, that brought the enrollment to 216. The first phase of a new St. Michael plant was completed in the form of two classrooms and a parish hall. Six additional classrooms were completed in 1958. Growth stimulated by the Lawrence Radiation Laboratory increased enrollment to 400 students by 1960. The original St. Michael Academy was then used for the sisters' living quarters, school office, and library.

In 1965 St. Michael accepted children to fill two first grades, the plan being to have a double grade school, with an additional school plant located at a site on East Avenue. It was planned that six classrooms would be built on that site, which would eventually house two sixth, seventh and eighth grades. The plans were changed, however, in the spring of 1967 because of prohibitive building costs. It was decided at that time to remain a single-grade school, eventually phasing out the double grades. Monsignor Robert Adams completed the last phase of the modern school plant in October 1966. This included two additional classrooms and a large new convent as the sisters' living quarters; the former convent was converted to a Parish Education Center. In September 1988 St. Michael opened a Kindergarten. The first class had a total enrollment of thirty students in the two half day sessions.

Today St. Michael School offers a full spectrum of religious and educational experiences for girls and boys in kindergarten through grade eight. Approximately 325 students participate in the elementary and junior high program, which includes religious, scholastic, physical education, and extra-curricular activities. Saint Michael School is staffed with highly qualified administrative and academic personnel. The Dominican Sisters are an integral part of the parish and the school. A nine-member school board, operating within the jurisdiction of the Diocese of Oakland, guides the school, largely financed through tuition.

In 2004, a new building was added to the campus. This new building was blessed and dedicated by the Most Reverend Allen H. Vigneron, Bishop of Oakland on January 31, 2004 with many parishioners and guests present for the opening ceremonies. The school offices, Faith Formation offices, Hispanic Ministry offices, Library and Resource Center, Technology Center, Science/Math Lab classrooms, and various other classrooms occupy the new Education Center located at 345 Church Street.