| Bishop Philip Anyolo Sec – Kakamwe | Boarding | Boys |
| Brenda Friend’S Girls’ Secondary School | Boarding | Girls |
| Bukokholo Girls Secondary School | Boarding | Girls |
| Bungoma Baptist Girls, High School | Boarding | Girls |
| Busakala Secondary School | Boarding | Mixed |
| Chebosi S.A. Secondary School | Boarding | Boys |
| Chemweisus S.A Secondary School | Boarding | Mixed |
| Eluuya Friends Girls Secondary School | Boarding | Girls |
| Friends Moi High School-Kaptama | Boarding | Boys |
| Friends Moi Kaptama Girls Secondary School | Boarding | Girls |
| Friends School Kikai Girls Secondary | Boarding | Girls |
| Friends School Naitiri | Boarding | Boys |
| Friends Secondary Kimugui Girls School | Boarding | Girls |
| Friends Secondary School Bukembe | Boarding | Boys |
| Friends Secondary School Lwanda | Boarding | Girls |
| Friends Secondary School Misanga | Boarding | Mixed |
| Friends Secondary School-Kibisi | Boarding | Mixed |
| Kabuchai Girls Secondary School | Boarding | Girls |
| Kapkateny A.C.K Secondary School | Boarding | Mixed |
| Kaptanai Secondary School | Boarding | Mixed |
| Karima Secondary School | Boarding | Mixed |
| Khachonge Girls Secondary School | Boarding | Girls |
| Kikai Friends Secondary School | Boarding | Boys |
| Kim Girls High School-Kapkota | Boarding | Girls |
| Kimabole Secondary School | Boarding | Mixed |
| Kimaeti High School | Boarding | Boys |
| Kimalewa Secondary School | Boarding | Mixed |
| Kimobo Secondary School | Boarding | Mixed |
| Kimugui Secondary School | Boarding | Boys |
| Kipsis Secondary School | Boarding | Mixed |
| Lungai Secondary School | Boarding | Mixed |
| Mabanga Girls Secondary School | Boarding | Girls |
| Machakha Mixed Secondary School | Boarding | Mixed |
| Maeni Girls’ Secondary School | Boarding | Girls |
| Maliki Boys Secondary School | Boarding | Boys |
| Marobo Girls Secondary School | Boarding | Girls |
| Matulo Friends Girls Secondary School | Boarding | Girls |
| Mbakalo Friends Secondary School | Boarding | Boys |
| Milima Friends Secondary School | Boarding | Mixed |
| Milo Friends Boys’ High School | Boarding | Boys |
| Misemwa Secondary School | Boarding | Mixed |
| Misikhu Friends Secondary School | Boarding | Boys |
| Mukuyuni Secondary School | Boarding | Girls |
| Mungore Girls Secondary School | Boarding | Girls |
| Mwiruti Girls Secondary School | Boarding | Girls |
| Namachanja High School | Boarding | Mixed |
| Namawanga Baha’I Sec Sch | Boarding | Mixed |
| Namilama Secondary School | Boarding | Mixed |
| Namwela Secondary School | Boarding | Boys |
| Napara Secondary School | Boarding | Girls |
| Ndakaru S.A Secondary School | Boarding | Mixed |
| Ndivisi Boys High School | Boarding | Boys |
| Nzoia Sugar Girls Secondary School | Boarding | Girls |
| Sikusi Secondary School | Boarding | Boys |
| Sipala Friends Boys’ High School | Boarding | Boys |
| Sirakaru Secondary School | Boarding | Mixed |
| Sirende Secondary School | Boarding | Mixed |
| St Francis High School Makemo | Boarding | Girls |
| St Martins’ Mwibale Secondary School | Boarding | Mixed |
| St Patrick’S Kimukungi Girls | Boarding | Girls |
| St Pau’Ls Miluki Secondary School | Boarding | Girls |
| St. Anthony Boys High School-Sirisia | Boarding | Boys |
| St. Bridgid Nangwe Girls High School | Boarding | Girls |
| St. Charles Lwanga Secondary School Bwake | Boarding | Mixed |
| St. Josephs Nalondo Girls | Boarding | Girls |
| St. Peter’S Nakalira Secondary School | Boarding | Boys |
| St. Teresa’S Girls – Cheptoror | Boarding | Girls |
| St. Theresa’S Girls Secondary School Kimilili | Boarding | Girls |
| St.Kizito Secondary School Sirende | Boarding | Girls |
| St.Pauls Narati Boys Secondary | Boarding | Boys |
| St.Peter’S Ndalu Secondary | Boarding | Mixed |
| Tabani Friends Secondary | Boarding | Mixed |
| The Salvation Army Cheptais Boys High School | Boarding | Boys |
| Toloso Secondary School | Boarding | Boys |
| Toroso Secondary School | Boarding | Mixed |
| Wamalwa Kijana Friends Secondary School | Boarding | Mixed |