| Minnetonka Christian Academy | 3.8 |
Regular elementary or secondary | KG-12 | 141 | 11.8 | Seventh-Day Adventist |
| The Whole Learning School | 5.2 |
Special education | Ungraded-Ungraded | 14 | 4.7 | Nonsectarian |
| Metropolitan Open School | 5.3 |
Alternative/other | Ungraded-Ungraded | 4 | 3.1 | Nonsectarian |
| Groves Academy | 6.2 |
Special education | 2-12 | 181 | 5.6 | Nonsectarian |
| Bethany Academy | 6.8 |
Regular elementary or secondary | KG-12 | 254 | 13.7 | Christian (no specific denomination) |
| Fourth Baptist Christian School | 6.8 |
Regular elementary or secondary | Pre-KG-12 | 232 | 12.7 | Baptist |
| My Favorite Place Montessori School Llc | 7.3 |
Montessori | Ungraded-Ungraded | 21 | 21.0 | Nonsectarian |
| Breck School | 8.1 |
Regular elementary or secondary | Pre-KG-12 | 1159 | 10.4 | Episcopal |
| Lake Country School | 8.4 |
Montessori | KG-9 | 243 | 10.9 | Nonsectarian |
| Calvary United Pentecostal Academy (calvary Chris | 8.6 |
Regular elementary or secondary | 2-12 | 15 | 13.6 | Pentecostal |
| Providence Academy | 10.8 |
Regular elementary or secondary | Pre-KG-12 | 786 | 12.4 | Roman Catholic |
| Maranatha Christian Academy | 11.6 |
Regular elementary or secondary | Pre-KG-12 | 649 | 15.6 | Christian (no specific denomination) |
| Second Foundation School | 11.8 |
Alternative/other | Ungraded-Ungraded | 28 | 14.0 | Nonsectarian |
| Sunny Hollow Montessori | 12.2 |
Montessori | Ungraded-Ungraded | 103 | 20.6 | Nonsectarian |
| Prior Lake Christian School | 12.8 |
Regular elementary or secondary | KG-12 | 88 | 11.7 | Baptist |
| Southview Christian School | 13.2 |
Regular elementary or secondary | Pre-KG-9 | 29 | 14.5 | Seventh-Day Adventist |
| St Paul Academy - Summit | 13.5 |
Regular elementary or secondary | KG-12 | 866 | 8.7 | Nonsectarian |
| Heritage Christian Academy | 13.5 |
Regular elementary or secondary | Pre-KG-12 | 543 | 15.2 | Other Lutheran |
| Minnesota Valley Baptist School | 14.1 |
Regular elementary or secondary | KG-11 | 15 | 2.1 | Baptist |
| Maranatha Christian Academy | 14.2 |
Regular elementary or secondary | Pre-KG-12 | 647 | 18.5 | Christian (no specific denomination) |
| Convent Of The Visitation School | 15.3 |
Regular elementary or secondary | Pre-KG-12 | 558 | 11.1 | Roman Catholic |
| Glory Academy | 15.8 |
Regular elementary or secondary | KG-9 | 26 | 5.9 | Pentecostal |
| St Agnes School | 16.4 |
Regular elementary or secondary | KG-12 | 419 | 13.3 | Roman Catholic |
| Al-amal School | 16.4 |
Regular elementary or secondary | Pre-KG-12 | 352 | 13.9 | Islamic |
| Christ's Household Of Faith | 16.6 |
Regular elementary or secondary | Pre-KG-12 | 143 | 6.0 | Christian (no specific denomination) |
| Woodcrest Baptist Academy | 16.6 |
Regular elementary or secondary | Pre-KG-12 | 176 | 15.4 | Baptist |
| St Bernards School | 17.5 |
Regular elementary or secondary | 1-12 | 370 | 8.7 | Roman Catholic |
| Faith Baptist Christian School | 18.6 |
Regular elementary or secondary | Pre-KG-12 | 63 | 5.2 | Baptist |
| Coon Rapids Christian | 20.7 |
Regular elementary or secondary | KG-12 | 42 | 14.0 | Baptist |
| Christian Life School | 21.0 |
Regular elementary or secondary | Pre-KG-12 | 152 | 11.3 | Assembly of God |
| Mounds Park Academy | 22.2 |
Regular elementary or secondary | Pre-KG-12 | 639 | 10.2 | Nonsectarian |
| Hope Christian Academy | 22.5 |
Regular elementary or secondary | KG-12 | 84 | 12.9 | Christian (no specific denomination) |
| Holy Family Academy | 22.8 |
Regular elementary or secondary | KG-12 | 34 | 5.0 | Roman Catholic |
| New Life Academy | 23.2 |
Regular elementary or secondary | Pre-KG-12 | 616 | 14.1 | Christian (no specific denomination) |
| Bunker Hills Academy | 23.4 |
Regular elementary or secondary | Pre-KG-10 | 95 | 10.7 | Christian (no specific denomination) |
| Meadow Creek Christian School | 23.4 |
Regular elementary or secondary | Pre-KG-12 | 617 | 16.4 | Christian (no specific denomination) |
| Abi Christian Academy | 23.7 |
Regular elementary or secondary | Ungraded-Ungraded | 25 | 10.0 | Pentecostal |
| St Annes Academy | 24.5 |
Regular elementary or secondary | 1-12 | 57 | 6.6 | Roman Catholic |
