| Stockton Accelerated Institute | 0.0 |
Regular elementary or secondary | KG-6 | 23 | 7.9 | Pentecostal |
| Annunciation Elementary School | 0.3 |
Regular elementary or secondary | KG-8 | 289 | 27.5 | Roman Catholic |
| First Baptist Christian School | 1.1 |
Regular elementary or secondary | KG-8 | 154 | 14.0 | Baptist |
| St Luke Catholic Elementary School | 1.4 |
Regular elementary or secondary | Pre-KG-8 | 231 | 16.6 | Roman Catholic |
| Rainbow School | 1.4 |
Early childhood program/child care center | Pre-KG-KG | 8 | 10.0 | Nonsectarian |
| Sierra Christian School | 1.7 |
Regular elementary or secondary | KG-8 | 128 | 11.8 | Church of Christ |
| Montessori Children's House | 2.0 |
Montessori | Pre-KG-6 | 31 | 10.3 | Nonsectarian |
| St George Parish School | 2.4 |
Regular elementary or secondary | KG-8 | 236 | 23.6 | Roman Catholic |
| Oakbrooke Private School | 2.9 |
Regular elementary or secondary | KG-8 | 30 | 7.5 | Nonsectarian |
| Lakeside Christian School K-8 | 3.0 |
Regular elementary or secondary | KG-8 | 515 | 17.2 | Christian (no specific denomination) |
| Presentation Elementary School | 3.5 |
Regular elementary or secondary | KG-8 | 293 | 17.9 | Roman Catholic |
| Life Training Academy | 3.5 |
Regular elementary or secondary | KG-8 | 36 | 6.4 | Baptist |
| Stockton Sda School | 3.7 |
Regular elementary or secondary | 2-8 | 14 | 14.0 | Seventh-Day Adventist |
| Stockton Seventh-day Adventist | 3.7 |
Regular elementary or secondary | 2-8 | 14 | 14.0 | Seventh-Day Adventist |
| Merryhill Schools At Brookside | 3.9 |
Regular elementary or secondary | KG-8 | 254 | 16.9 | Nonsectarian |
| Carden School Of Stockton | 4.1 |
Regular elementary or secondary | KG-8 | 59 | 6.9 | Nonsectarian |
| Montessori Villa Llc | 9.5 |
Montessori | Pre-KG-Trans. 1 | 25 | 4.2 | Nonsectarian |
| Century Christian School | 9.8 |
Regular elementary or secondary | Pre-KG-8 | 311 | 20.3 | Christian (no specific denomination) |
| Lodi Sda Elementary School | 10.7 |
Regular elementary or secondary | KG-8 | 202 | 18.4 | Seventh-Day Adventist |
| Vineyard Christian Middle School | 11.4 |
Regular elementary or secondary | 6-8 | 84 | 28.0 | Christian (no specific denomination) |
| St Anne School | 11.5 |
Regular elementary or secondary | KG-8 | 249 | 19.4 | Roman Catholic |
| St Peter Lutheran School | 11.6 |
Regular elementary or secondary | Pre-KG-8 | 171 | 14.4 | Lutheran Church - Missouri Synod |
| Plumfield Christian Academy | 11.7 |
Regular elementary or secondary | KG-8 | 102 | 11.6 | Christian (no specific denomination) |
| Always Friends Preschool Childcare | 12.0 |
Early childhood program/child care center | Pre-KG-KG | 7 | 7.8 | Nonsectarian |
| St Anthony School | 12.3 |
Regular elementary or secondary | Pre-KG-8 | 268 | 23.5 | Roman Catholic |
| Manteca Adventist Christian School | 12.4 |
Regular elementary or secondary | 1-8 | 15 | 15.0 | Seventh-Day Adventist |
| Happy Hours Preschool And Kindergarten | 12.5 |
Early childhood program/child care center | Pre-KG-Trans. KG | 23 | 23.0 | Church of God |
| Manteca Christian School | 12.6 |
Regular elementary or secondary | Pre-KG-8 | 121 | 13.6 | Assembly of God |
| Kindercare Learning Centers | 16.4 |
Early childhood program/child care center | Pre-KG-KG | 8 | 1.8 | Nonsectarian |
| Tracy Sda School | 16.5 |
Regular elementary or secondary | KG-8 | 31 | 15.5 | Seventh-Day Adventist |
| St Bernard's School | 17.0 |
Regular elementary or secondary | KG-8 | 267 | 19.6 | Roman Catholic |
| Bella Vista Christian Academy | 17.1 |
Regular elementary or secondary | Pre-KG-8 | 137 | 13.8 | Lutheran Church - Missouri Synod |
| West Valley Christian Academy | 17.8 |
Regular elementary or secondary | KG-8 | 290 | 13.9 | Assembly of God |
| Montessori School Of Tracy | 18.0 |
Montessori | Pre-KG-4 | 160 | 6.7 | Nonsectarian |
| Galt Christian School | 19.5 |
Regular elementary or secondary | KG-8 | 55 | 9.5 | Christian (no specific denomination) |
| New Hope Christian School | 19.5 |
Early childhood program/child care center | Pre-KG-KG | 5 | 2.5 | Assembly of God |
| Valley Christian School | 19.9 |
Regular elementary or secondary | KG-8 | 36 | 6.7 | Christian (no specific denomination) |
| Galt Adventist Christian School | 20.1 |
Regular elementary or secondary | KG-8 | 28 | 14.0 | Seventh-Day Adventist |
| Modesto Christian Elementary School | 20.5 |
Regular elementary or secondary | KG-4 | 160 | 17.0 | Assembly of God |
| Trinity Christian Schools | 21.4 |
Regular elementary or secondary | Pre-KG-8 | 59 | 9.7 | Christian (no specific denomination) |
| Dainty Center/willow Wood School | 22.7 |
Regular elementary or secondary | Pre-KG-6 | 209 | 41.8 | Nonsectarian |
| Montessori School Of Brentwood | 23.2 |
Montessori | Pre-KG-KG | 15 | 7.5 | Nonsectarian |
| Kindercare | 23.9 |
Early childhood program/child care center | Pre-KG-KG | 4 | 2.1 | Nonsectarian |
| Montessori School Of Modesto | 24.1 |
Montessori | Pre-KG-KG | 16 | 2.2 | Nonsectarian |
