| Otay Christian Academy | 0.0 |
37 | 2.7% | 97.3% | - | - | - |
| Midway Baptist School | 1.4 |
342 | 27.2% | 67.0% | 2.6% | - | 3.2% |
| New Life Christian Academy | 2.8 |
51 | - | 100.0% | - | - | - |
| Sam & Rose Stein Education Center | 3.5 |
62 | 25.8% | 58.1% | - | - | 16.1% |
| South Bay Christian Academy | 3.7 |
42 | 26.2% | 42.9% | 26.2% | - | 4.8% |
| Calvary Christian Academy | 5.2 |
400 | 39.8% | 42.0% | 5.5% | - | 12.8% |
| Calvary Christian Jr/sr High School | 5.2 |
465 | 62.4% | 1.3% | 34.2% | - | 2.2% |
| Faithful Ambassadors Bible | 5.4 |
117 | 2.6% | 4.3% | - | - | 93.2% |
| San Diego Academy | 6.3 |
333 | 20.1% | 39.9% | 9.0% | - | 30.9% |
| Kuyper Preparatory School | 7.2 |
126 | 51.6% | 23.0% | 11.9% | 3.2% | 10.3% |
| True Faith Academy | 7.6 |
24 | 66.7% | 20.8% | - | - | 12.5% |
| Rainbow Christian | 8.1 |
6 | 100.0% | - | - | - | - |
| Lighthouse Christian Academy | 8.6 |
120 | 45.0% | 30.0% | 20.0% | - | 5.0% |
| Tabernacle Christian Academy | 8.7 |
75 | 22.7% | 30.7% | 36.0% | 2.7% | 8.0% |
| Balboa City School | 10.6 |
95 | 73.7% | 11.6% | 9.5% | 1.1% | 4.2% |
| Heartland Christian | 10.8 |
137 | 73.7% | 19.0% | 5.1% | - | 2.2% |
| Dunamis Learning Center | 11.2 |
8 | 62.5% | 25.0% | - | - | 12.5% |
| Aseltine School | 11.7 |
49 | 28.6% | 18.4% | 44.9% | 8.2% | - |
| Marjorie Cook Education Center | 12.6 |
110 | 84.5% | 7.3% | 4.5% | 0.9% | 2.7% |
| Sam & Rose Stein Education Center | 13.2 |
189 | 41.3% | 28.0% | 19.6% | 0.5% | 10.6% |
| Rock Academy, The | 13.2 |
244 | 52.0% | 17.6% | 22.1% | 1.2% | 7.0% |
| La Mesa Christian School | 13.7 |
63 | 71.4% | 11.1% | 12.7% | 1.6% | 3.2% |
| Excelsior Academy | 14.1 |
63 | 88.9% | 6.3% | 3.2% | 1.6% | - |
| Springall Academy | 14.2 |
71 | 43.7% | 25.4% | 22.5% | 2.8% | 5.6% |
| Home School Alternative, The | 14.4 |
8 | 62.5% | 37.5% | - | - | - |
| Del Rey Schools | 15.7 |
28 | 75.0% | 17.9% | - | 7.1% | - |
| Heritage Christian School | 17.1 |
868 | - | - | 100.0% | - | - |
| Horizon Elementary School | 17.8 |
842 | 70.0% | 10.0% | 10.1% | - | 10.0% |
| La Jolla Country Day School | 21.4 |
973 | 73.7% | 10.6% | 5.1% | - | 10.6% |
| Sierra Schools Of California | 21.9 |
39 | 79.5% | 7.7% | 5.1% | - | 7.7% |
