Levels: Primary, Middle, High, Other
| Name | Level |
|---|---|
| Capital High | High |
| Central Wisconsin Center | Other |
| Innovative and Alternative Middle | Middle |
| Innovative High | High |
| Mendota Mental Health Institution | Other |
| Metro School | Other |
| Shabazz-City High | High |
Levels: Primary, Middle, High, Other
Levels: Elementary School, Secondary School, Other - mixed grades
| Name | Level |
|---|---|
| Abundant Life Christian School | Mixed Grades |
| Blessed Sacrament School | Elementary |
| Capitoland Christian School | Elementary |
| Eastside Lutheran School | Elementary |
| Edgewood Campus School | Elementary |
| Edgewood High School of the Sacred Heart | Secondary |
| Hickory Hill Academy | Elementary |
| High Point Christian School | Elementary |
| Holy Cross Lutheran School | Elementary |
| Horizon High | Secondary |
| King's Kids Academy | Elementary |
| Madinah Academy of Madison | Elementary |
| Our Lady Queen of Peace School | Elementary |
| St. Dennis School | Elementary |
| St. James School | Elementary |
| St. Maria Goretti | Elementary |
| Three Angels Christian School | Elementary |
| Wingra School | Elementary |
| Name | Level |
|---|---|
| Blooming Grove Montessori | Mixed Grades |
| Greenway Crossing Montessori | Elementary |
| Montessori Childrens House | Elementary |
| Toad Hill Childrens House | Elementary |
| Woodland Montessori School | Elementary |
| Name | Level |
|---|---|
| Richardson School | Mixed Grades |
| Wings To Soar Online Academy | Mixed Grades |
| Name | Level |
|---|---|
| Lighthouse Christian School | Elementary |
| Operation Fresh Start | Secondary |
Levels: Elementary School, Secondary School, Other - mixed grades