In Busia County, Mundika, Kolanya Nangina and Sigalame top the list of best schools in the county.
Extra County Schools in Kenya form the second tier of secondary schools; after National schools. They were formerly referred to as Provincial schools. These schools are distributed all over the Country with each county having its share. The schools admit students from all over the country. These schools are in 3 Categories i.e category 1 (C1), Category 2 (C2) and Category 3 (C3). The Schools are either of Mixed or single sex type.
Here are the Extra County Schools in Busia County:
| School Code | School Name | Category | Type | Cluster |
| 35601201 | ST MARY’S MUNDIKA HIGH SCHOOL | Extra County | Boys | C3 |
| 35601202 | ST. STEPHENS LWANYA GIRLS SECONDARY | Extra County | Girls | C1 |
| 35606101 | S.A. KOLANYA BOYS HIGH SCHOOL | Extra County | Boys | C1 |
| 35606103 | BISHOP SULUMETI CHELELEMUK GIRLS HIGH SCHOOL | Extra County | Girls | C3 |
| 35609104 | SIGALAME HIGH SCHOOL | Extra County | Boys | C1 |
| 35609105 | ST. CECILIA NANGINA GIRLS HIGH SCHOOL | Extra County | Girls | C1 |
| 35610101 | ST.BENEDICT’S HIGH SCHOOL -BUDALANGI | Extra County | Boys | C3 |
| 35620101 | ST. PAUL’S AMUKURA HIGH SCHOOL | Extra County | Boys | C2 |
| 35620201 | ST MONICA CHAKOL GIRLS’ HIGH SCHOOL | Extra County | Girls | C2 |
| 35623105 | BUSIADA GIRLS’ HIGH SCHOOL | Extra County | Girls | C3 |
| 35629101 | NAMBALE SECONDARY SCHOOL | Extra County | Boys | C1 |
| 35629102 | KISOKO GIRLS SECONDARY SCHOOL | Extra County | Girls | C2 |
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