| The Young School | 2.4 |
Montessori | Trans. 1-6 | 40 | 10.0 | Nonsectarian |
| St Helena Catholic School | 2.4 |
Regular elementary or secondary | KG-8 | 90 | 11.4 | Roman Catholic |
| St Helen Montessori School | 2.4 |
Montessori | Pre-KG-6 | 50 | 6.4 | Roman Catholic |
| Pacific Union College Elementary School | 2.4 |
Regular elementary or secondary | KG-8 | 128 | 13.8 | Seventh-Day Adventist |
| Bethlehem Children's Center & Kindergarten | 10.8 |
Early childhood program/child care center | Pre-KG-KG | 33 | 9.2 | Evangelical Lutheran Church in America |
| Brush Creek Montessori | 12.5 |
Montessori | Pre-KG-4 | 28 | 5.0 | Nonsectarian |
| St Eugene Cathedral School | 13.4 |
Regular elementary or secondary | Pre-KG-8 | 350 | 27.1 | Roman Catholic |
| Merryhill School | 13.7 |
Regular elementary or secondary | KG-5 | 87 | 9.1 | Nonsectarian |
| St Luke Lutheran School | 14.8 |
Regular elementary or secondary | Pre-KG-8 | 83 | 13.6 | Lutheran Church - Missouri Synod |
| St Rose Elementary School | 15.1 |
Regular elementary or secondary | KG-8 | 344 | 25.5 | Roman Catholic |
| Sunrise Montessori Of Napa Valley | 15.8 |
Montessori | Pre-KG-6 | 64 | 6.3 | Nonsectarian |
| Middletown Sda School | 16.4 |
Regular elementary or secondary | 1-8 | 20 | 6.7 | Seventh-Day Adventist |
| St Michael's Orthodox School | 16.5 |
Alternative/other | Trans. 1-8 | 13 | 4.3 | Greek Orthodox |
| College Oak Montessori School | 16.5 |
Montessori | Pre-KG-KG | 8 | 2.0 | Nonsectarian |
| St Apollinaris School | 16.8 |
Regular elementary or secondary | KG-8 | 275 | 21.3 | Roman Catholic |
| Old Adobe School | 16.9 |
Early childhood program/child care center | Pre-KG-Trans. KG | 2 | 0.4 | Nonsectarian |
| St John's Lutheran School | 17.0 |
Regular elementary or secondary | Pre-KG-8 | 235 | 18.9 | Lutheran Church - Missouri Synod |
| Sonoma Valley Christian School | 17.1 |
Regular elementary or secondary | KG-8 | 45 | 12.5 | Christian (no specific denomination) |
| Countryside Preschool And Kindergarten | 17.2 |
Early childhood program/child care center | Pre-KG-KG | 7 | 6.4 | Christian (no specific denomination) |
| Sonoma Country Day School | 17.4 |
Regular elementary or secondary | KG-8 | 263 | 11.6 | Nonsectarian |
| Montessori School Of Sonoma | 17.5 |
Montessori | Pre-KG-KG | 3 | 3.0 | Nonsectarian |
| Woodside West Elementary School | 17.5 |
Regular elementary or secondary | Pre-KG-1 | 12 | 1.9 | Nonsectarian |
| Cross Crown Lutheran School | 18.0 |
Regular elementary or secondary | Pre-KG-8 | 152 | 11.2 | Evangelical Lutheran Church in America |
| The Presentation School | 18.5 |
Regular elementary or secondary | KG-8 | 182 | 11.1 | Roman Catholic |
| First Christian School | 18.6 |
Regular elementary or secondary | Pre-KG-8 | 47 | 6.3 | Christian (no specific denomination) |
| St John The Baptist Catholic School | 19.0 |
Regular elementary or secondary | KG-8 | 213 | 17.2 | Roman Catholic |
| Hopper Creek Montessori | 19.1 |
Montessori | Pre-KG-Trans. KG | 2 | 1.1 | Nonsectarian |
| Windsor Christian Academy | 19.4 |
Regular elementary or secondary | Pre-KG-8 | 179 | 14.6 | Baptist |
| Rainbow Bridge Montessori School | 19.5 |
Montessori | Pre-KG-KG | 8 | 4.0 | Nonsectarian |
| Sebastopol Christian School | 21.9 |
Regular elementary or secondary | KG-8 | 58 | 11.4 | Assembly of God |
| Willow Tree School | 22.3 |
Montessori | Pre-KG-Trans. KG | 1 | 1.1 | Nonsectarian |
| Little Oaks Montessori Preschool And Kindergarten | 22.6 |
Montessori | Pre-KG-KG | 7 | 7.0 | Nonsectarian |
| Pleasant Hill Christian School | 22.7 |
Regular elementary or secondary | KG-6 | 58 | 13.2 | Christian (no specific denomination) |
| St Vincent Elementary School | 23.1 |
Regular elementary or secondary | KG-8 | 299 | 20.2 | Roman Catholic |
| Harvest Christian School | 23.5 |
Regular elementary or secondary | KG-7 | 118 | 13.7 | Christian (no specific denomination) |
