| District | City | School Name | Management Organization | Accolades | Year Opened |
| Racine Unified School District | Racine | 21st Century Preparatory School | Made AYP | 2002 | |
| Sheboygan Area School District | Sheboygan | A2 Charter School | Made AYP | 2007 | |
| Milwaukee Public Schools | Milwaukee | Academia De Leguaje Y Bellas (ALBA) | Made AYP | 2004 | |
| Milwaukee Public Schools | Milwaukee | Academy of Learning & Leadership | Did Not Make AYP | 2003 | |
| West Allis | Academy of Learning (AOL) | Made AYP | 2001 | ||
| Oshkosh Area School District | Oshkosh | Accelerated Alternative Learning Program (ALPS) | Made AYP | 2004 | |
| Milwaukee Public Schools | Milwaukee | Advanced Language and Academic Studies (ALAS) | Did Not Make AYP | 2004 | |
| Neenah Joint School District | Neenah | Alliance Charter Elementary | Made AYP | 2004 | |
| Appleton Area School District | Appleton | Appleton Career Academy | Made AYP | 2007 | |
| Appleton Area School District | Appleton | Appleton Central Alternative School | Did Not Make AYP | 1996 | |
| Appleton Area School District | Appleton | Appleton Community Learning Center | Made AYP | 2000 | |
| Appleton | Appleton eSchool | Made AYP | 2002 | ||
| Appleton Area School District | Appleton | Appleton Public Montesori | Made AYP | 2005 | |
| Argyle School District | Argyle | Argyle Land Ethic Academy (ALEA) | 2004 | ||
| Milwaukee Public Schools | Milwaukee | Audubon Technology and Communication Center High | Made AYP | 2008 | |
| Milwaukee Public Schools | Milwaukee | Audubon Technology and Communications Center Middle | Did Not Make AYP | 2001 | |
| Barron Area School District | Barron | Barron Area Montessori School | Made AYP | 2007 | |
| Beaver Dam Unified School District | Beaver Dam | Beaver Dam Charter Sch | Made AYP | 1995 | |
| Birchwood Public Schools | Birchwood | Birchwood Discovery Center | Made AYP | 2007 | |
| Trevor-Wilmot Consolidated | Wilmot | Bright Horizons | 2006 | ||
| Milwaukee Public Schools | Milwaukee | Bruce Guadalupe | Made AYP | 2001 | |
| Milwaukee Public Schools | Milwaukee | Business & Economics Academy of Milwaukee (BEAM) | Edison Learning | Did Not Make AYP | 2001 |
| Milwaukee Public Schools | Milwaukee | Capitol West Academy | Made AYP | 2004 | |
| Kimberly Area School District | Kimberly | Caring Opportunities for Recovery | Made AYP | 2005 | |
| Milwaukee Public Schools | Milwaukee | Carmen High School of Science and Technology | Made AYP | 2007 | |
| Milwaukee Public Schools | Milwaukee | Carter School of Excellence | Made AYP | 2003 | |
| Wisconsin Rapids Public Schools | Wisconsin Rapids | Central Cities Health Institute | Made AYP | 2005 | |
| Milwaukee | Central City Cyberschool | Made AYP | 1999 | ||
| Eau Claire Area School District | Eau Claire | Chippewa Valley Montessori Charter School | Made AYP | 2002 | |
| Eau Claire Area School District | Eau Claire | Chippewa Valley Technology Charter School | 1999 | ||
| Milwaukee Public Schools | Milwaukee | CITIES Project High School | Made AYP | 2004 | |
| Appleton Area School District | Appleton | Classical School | Made AYP | 1999 | |
| Milwaukee Public Schools | Milwaukee | Community High School | Did Not Make AYP | 2004 | |
| Janesville School District | Janesville | Community Recovery Education Service (CRES) Academy | Made AYP | 2008 | |
| Richland School District | Richland Center | Comprehensive Learning Center | Made AYP | 1999 | |
| Stevens Point Area Public School District | Stevens Point | Concerned about Reaching Everyone (C.A.R.E.) | Made AYP | 1999 | |
| Oak Creek Franklin Joint School District | Cudahy | Connects Learning Center | 2001 | ||
| Whitnall School District | Greenfield | CORE 4 (Collaborating on Readiness Education) | 2006 | ||
| Verona Area School District | Verona | Core Knowledge Charter School | Made AYP | 1996 | |
| La Crosse School District | La Crosse | Coulee Montessori Charter Sch | Made AYP | 1998 | |
| School District of Crandon | Crandon | Crandon Alternative Resource School (CARS) | Made AYP | 2001 | |
| Ripon Area School District | Ripon | Crossroads | Made AYP | 2008 | |
| Milwaukee Public Schools | Milwaukee | Darrell L. Hines Academy | Made AYP | 2002 | |
| School District of Denmark | Denmark | Denmark Empowerment Charter School | Made AYP | 2001 | |
| Kenosha Unified School District No. 1 | Kenosha | Dimensions of Learning Academy | Made AYP | 2000 | |
| Columbus School District | Columbus | Discovery Charter School | Made AYP | 2007 | |
| Milwaukee Public Schools | Milwaukee | Downtown Institute of Arts & Letters (DIAL) | Did Not Make AYP | 2006 | |
| Milwaukee Public Schools | Milwaukee | Downtown Montessori | Made AYP | 1998 | |
| Hurley School District | Hurley | Dr Joseph Lalich Charter Sch | Made AYP | 1999 | |
| Mukwonago Area School District | Eagle | Eagleville Charter School | Made AYP | 2004 |