| St Elizabeth Seton School | 1.0 |
Regular elementary or secondary | Pre-KG-8 | 208 | 14.2 | Roman Catholic |
| Naples Christian Academy | 1.4 |
Regular elementary or secondary | Pre-KG-8 | 156 | 10.5 | Christian (no specific denomination) |
| Able Academy | 3.8 |
Special education | Pre-KG-2 | 13 | 1.6 | Nonsectarian |
| The Village School | 4.8 |
Regular elementary or secondary | Pre-KG-8 | 258 | 12.3 | Methodist |
| Christ Community Lutheran School | 4.8 |
Regular elementary or secondary | Pre-KG-8 | 53 | 8.4 | Lutheran Church - Missouri Synod |
| Naples Sda School | 5.2 |
Regular elementary or secondary | Pre-KG-8 | 26 | 8.7 | Seventh-Day Adventist |
| Moorings Presbyterian Preschool | 5.3 |
Early childhood program/child care center | Pre-KG-Trans. KG | 7 | 5.4 | Presbyterian |
| Eagle's Nest Christian Academy | 5.6 |
Regular elementary or secondary | Pre-KG-5 | 12 | 2.0 | Christian (no specific denomination) |
| Cedar Montessori School | 6.2 |
Montessori | Pre-KG-5 | 36 | 7.2 | Nonsectarian |
| St Ann School | 6.4 |
Regular elementary or secondary | Pre-KG-8 | 304 | 11.4 | Roman Catholic |
| Royal Palm Academy | 7.0 |
Regular elementary or secondary | Pre-KG-8 | 159 | 8.8 | Roman Catholic |
| Grace Community School | 12.3 |
Early childhood program/child care center | Pre-KG-KG | 14 | 4.8 | Christian (no specific denomination) |
| Island Montessori Academy | 16.4 |
Montessori | Pre-KG-KG | 1 | 0.4 | Nonsectarian |
| Steps To The Future Christian Academy | 23.5 |
Regular elementary or secondary | Pre-KG-8 | 6 | 3.0 | Baptist |
| Summit Christian School | 24.5 |
Regular elementary or secondary | Pre-KG-8 | 91 | 9.2 | Presbyterian |
