| West Valley Christian Academy | 1.0 |
Regular elementary or secondary | KG-8 | 290 | 13.9 | Assembly of God |
| St Bernard's School | 1.0 |
Regular elementary or secondary | KG-8 | 267 | 19.6 | Roman Catholic |
| Bella Vista Christian Academy | 1.3 |
Regular elementary or secondary | Pre-KG-8 | 137 | 13.8 | Lutheran Church - Missouri Synod |
| Tracy Sda School | 1.6 |
Regular elementary or secondary | KG-8 | 31 | 15.5 | Seventh-Day Adventist |
| Kindercare Learning Centers | 1.7 |
Early childhood program/child care center | Pre-KG-KG | 8 | 1.8 | Nonsectarian |
| Manteca Adventist Christian School | 11.8 |
Regular elementary or secondary | 1-8 | 15 | 15.0 | Seventh-Day Adventist |
| Always Friends Preschool Childcare | 12.3 |
Early childhood program/child care center | Pre-KG-KG | 7 | 7.8 | Nonsectarian |
| Plumfield Christian Academy | 12.9 |
Regular elementary or secondary | KG-8 | 102 | 11.6 | Christian (no specific denomination) |
| St Anthony School | 13.3 |
Regular elementary or secondary | Pre-KG-8 | 268 | 23.5 | Roman Catholic |
| Manteca Christian School | 14.1 |
Regular elementary or secondary | Pre-KG-8 | 121 | 13.6 | Assembly of God |
| St George Parish School | 16.2 |
Regular elementary or secondary | KG-8 | 236 | 23.6 | Roman Catholic |
| Stockton Seventh-day Adventist | 16.9 |
Regular elementary or secondary | 2-8 | 14 | 14.0 | Seventh-Day Adventist |
| Stockton Sda School | 16.9 |
Regular elementary or secondary | 2-8 | 14 | 14.0 | Seventh-Day Adventist |
| Montessori Children's House | 17.2 |
Montessori | Pre-KG-6 | 31 | 10.3 | Nonsectarian |
| Merryhill Schools At Brookside | 17.6 |
Regular elementary or secondary | KG-8 | 254 | 16.9 | Nonsectarian |
| Annunciation Elementary School | 17.7 |
Regular elementary or secondary | KG-8 | 289 | 27.5 | Roman Catholic |
| Rainbow School | 17.7 |
Early childhood program/child care center | Pre-KG-KG | 8 | 10.0 | Nonsectarian |
| Our Savior Lutheran School | 17.8 |
Regular elementary or secondary | Pre-KG-8 | 440 | 15.8 | Lutheran Church - Missouri Synod |
| Stockton Accelerated Institute | 18.0 |
Regular elementary or secondary | KG-6 | 23 | 7.9 | Pentecostal |
| St Michael S School | 18.3 |
Regular elementary or secondary | KG-8 | 300 | 21.4 | Roman Catholic |
| Valley Montessori School | 18.7 |
Montessori | Pre-KG-8 | 228 | 8.8 | Nonsectarian |
| Sunset Christian School | 18.9 |
Regular elementary or secondary | KG-5 | 57 | 12.9 | Christian (no specific denomination) |
| First Baptist Christian School | 18.9 |
Regular elementary or secondary | KG-8 | 154 | 14.0 | Baptist |
| Lakeside Christian School K-8 | 19.2 |
Regular elementary or secondary | KG-8 | 515 | 17.2 | Christian (no specific denomination) |
| Trinity Christian Schools | 19.2 |
Regular elementary or secondary | Pre-KG-8 | 59 | 9.7 | Christian (no specific denomination) |
| St Luke Catholic Elementary School | 19.3 |
Regular elementary or secondary | Pre-KG-8 | 231 | 16.6 | Roman Catholic |
| Sierra Christian School | 19.5 |
Regular elementary or secondary | KG-8 | 128 | 11.8 | Church of Christ |
| Modesto Christian Elementary School | 19.5 |
Regular elementary or secondary | KG-4 | 160 | 17.0 | Assembly of God |
| Presentation Elementary School | 20.1 |
Regular elementary or secondary | KG-8 | 293 | 17.9 | Roman Catholic |
| Oakbrooke Private School | 20.3 |
Regular elementary or secondary | KG-8 | 30 | 7.5 | Nonsectarian |
| Montessori School Of Brentwood | 20.6 |
Montessori | Pre-KG-KG | 15 | 7.5 | Nonsectarian |
| Dainty Center/willow Wood School | 20.6 |
Regular elementary or secondary | Pre-KG-6 | 209 | 41.8 | Nonsectarian |
| Carden School Of Stockton | 21.0 |
Regular elementary or secondary | KG-8 | 59 | 6.9 | Nonsectarian |
| Life Training Academy | 21.2 |
Regular elementary or secondary | KG-8 | 36 | 6.4 | Baptist |
| Kindercare | 21.5 |
Early childhood program/child care center | Pre-KG-KG | 4 | 2.1 | Nonsectarian |
| Montessori School Of Modesto | 22.4 |
Montessori | Pre-KG-KG | 16 | 2.2 | Nonsectarian |
| St Stanislaus Elem School | 23.1 |
Regular elementary or secondary | Pre-KG-8 | 223 | 15.0 | Roman Catholic |
| Hacienda School | 23.6 |
Montessori | 1-8 | 62 | 7.4 | Nonsectarian |
| Abc Reign Accelerated Learning Private School | 23.6 |
Regular elementary or secondary | KG-6 | 16 | 16.0 | Nonsectarian |
| Kindercare | 23.8 |
Early childhood program/child care center | Pre-KG-Trans. KG | 13 | 9.3 | Nonsectarian |
| Sacred Heart Catholic School | 23.9 |
Regular elementary or secondary | Pre-KG-8 | 241 | 20.8 | Roman Catholic |
| Grace Lutheran School | 24.2 |
Regular elementary or secondary | Pre-KG-8 | 128 | 11.8 | Lutheran Church - Missouri Synod |
| Our Lady Of Fatima Elem School | 24.2 |
Regular elementary or secondary | KG-8 | 261 | 23.5 | Roman Catholic |
| Small World Christian School | 24.4 |
Regular elementary or secondary | Pre-KG-3 | 46 | 15.3 | Christian (no specific denomination) |
| Sierra Vista Learning Center | 24.6 |
Special education | 1-8 | 39 | 9.8 | Nonsectarian |
| A Step Ahead Academic Academy | 24.8 |
Early childhood program/child care center | Pre-KG-KG | 4 | 2.0 | Nonsectarian |
| Orangeburg Christian School | 24.8 |
Regular elementary or secondary | Pre-KG-8 | 75 | 9.9 | Baptist |
