| Pius X High School | Lincoln | 9-12 | 1,068 | 11.6 | Roman Catholic |
| Creighton Preparatory School | Omaha | 9-12 | 988 | 11.6 | Roman Catholic, all-boys |
| VJ & Angela Skutt Catholic High School | Omaha | 9-12 | 711 | 12.3 | Roman Catholic |
| Concordia Jr.-Sr. High School | Omaha | K-12 | 665 | 16.6 | Lutheran Church (Missouri Synod) |
| Concordia Lutheran Schools of Omaha | Omaha | K-12 | 606 | 15.3 | Lutheran Church (Missouri Synod) |
| Marian High School | Omaha | 9-12 | 590 | 11.8 | Roman Catholic, all-girls |
| Brownell Talbot College Preparatory School | Omaha | PreK-12 | 436 | 8.9 | Nonsectarian |
| Archbishop Bergan Catholic School | Fremont | PreK-12 | 428 | 12.2 | Roman Catholic |
| Scotus Central Catholic High School | Columbus | 7-12 | 375 | 13.3 | Roman Catholic |
| Gross Catholic High School | Bellevue | 9-12 | 373 | 13.8 | Roman Catholic |
| Omaha Christian Academy | Omaha | PreK-12 | 370 | 11.6 | Christian (nondenominational) |
| Guardian Angels Central Catholic High School | West Point | PreK-12 | 364 | 12.5 | Roman Catholic |
| Kearney Catholic High School | Kearney | 6-12 | 355 | 14.7 | Roman Catholic |
| Catholic High School of Kearney | Kearney | 6-12 | 355 | 14.8 | Roman Catholic |
| St. Patrick Jr Sr High School | North Platte | K-12 | 349 | 9.5 | Roman Catholic |
| St. Patrick High School | North Platte | PreK-12 | 348 | 11.4 | Roman Catholic |
| Roncalli Catholic High School | Omaha | 9-12 | 338 | 15.4 | Roman Catholic |
| Duchesne Academy of the Sacred Heart | Omaha | PreK-12 | 326 | 8.8 | Roman Catholic, all-girls |
| Lincoln Lutheran Middle/High School | Lincoln | 6-12 | 321 | 13 | Lutheran Church (Missouri Synod) |
| Central Catholic Middle & High School | Grand Island | 6-12 | 302 | 12.5 | Roman Catholic |
| Lourdes Central Catholic School | Nebraska City | PreK-12 | 282 | 10.5 | Roman Catholic |
| Mercy High School | Omaha | 9-12 | 276 | 10.4 | Roman Catholic, all-girls |
| Bishop Neumann High School | Wahoo | 7-12 | 261 | 11.1 | Roman Catholic |
| Nebraska Christain Schools | Central City | PreK-12 | 247 | 13.5 | Christian (nondenominational) |
| College View Academy | Lincoln | K-12 | 233 | 14.2 | Seventh-Day Adventist |
| Mount Michael Benedictine High School | Elkhorn | 9-12 | 226 | 9.7 | Roman Catholic, all-boys |
| Norfolk Catholic High School | Norfolk | 7-12 | 225 | 15.1 | Roman Catholic |
| St. Cecilia Middle Sch/High School | Hastings | 6-12 | 222 | 9.7 | Roman Catholic |
| Parkview Christian Elementary | Lincoln | PreK-12 | 221 | 9.2 | Christian (nondenominational) |
| Sacred Heart Catholic School | Falls City | PreK-12 | 215 | 12.8 | Roman Catholic |
| Aquinas Middle High School | David City | 6-12 | 214 | 10.4 | Roman Catholic |
| St. Marys Schools | O'Neill | PreK-12 | 186 | 7.2 | Roman Catholic |
| St. Mary's Catholic School | O'Neill | PreK-12 | 186 | 8.3 | Roman Catholic |
| Cedar Catholic High School | Hartington | 7-12 | 169 | 10.2 | Roman Catholic |
| First Baptist School | Plattsmouth | K-12 | 143 | 8.9 | Baptist |
| Lutheran High Northeast | Norfolk | 9-12 | 123 | 9.6 | Lutheran Church (Missouri Synod) |
| Pope John XXIII/St.boniface Schools | Elgin | PreK-12 | 112 | 5.8 | Roman Catholic |
| Quest Forward Academy Omaha | Omaha | 9-12 | 103 | 9.3 | Nonsectarian |
| Holy Family School | Lindsay | PreK-11 | 98 | 6.2 | Roman Catholic |
| Immanuel Evangelical Lutheran School | Alliance | PreK-9 | 92 | 10.3 | Lutheran Church (Missouri Synod) |