| School | District | Grades | Population | Address - click for map | Phone |
| Pine Forest School | Pine Forest Education Association, Inc. | K-8 | 210 | 1120 West Kaibab Lane, Flagstaff, AZ 86001 | (928) 779–9880 |
| Flagstaff Arts And Leadership Academy | Flagstaff Arts And Leadership Academy | 9-12 | 150 | 3100 N. Fort Valley Rd. #41, Flagstaff, AZ 86001 | (928) 779–7223 |
| Montessori Charter School Of Flagstaff - Campus | Montessori Charter School Of Flagstaff, Inc. | K-8 | 259 | 850 N. Locust, Flagstaff, AZ 86001 | (928) 226–1212 |
| Mountain School | Mountain School, Inc. | K-6 | 137 | 311 W Cattle Drive Trail, Flagstaff, AZ 86001 | (928) 779–2392 |
| Northland Preparatory Academy | Northland Preparatory Academy | 7-12 | 324 | 3300 W. Sparrow Ave., Flagstaff, AZ 86004 | (928) 214–8776 |
| Flagstaff Junior Academy | Flagstaff Junior Academy | K-8 | 206 | 306 W. Cedar Avenue, Flagstaff, AZ 86001 | (928) 774–6007 |
| Bright Angel High School | Coconino County Regional Accommodation Sd | 9-12 | 0 | 121 East Birch Avenue Suite 2, Flagstaff, AZ 86001 | (928) 638–2461 |
| County Jail Education Program | Coconino County Regional Accommodation Sd | 7-12 | 3 | 911 E. Sawmill Road, Flagstaff, AZ 86001 | (928) 226–5085 |
| Juvenile Detention Education Program | Coconino County Regional Accommodation Sd | 4-12 | 13 | 911 E. Sawmill Road, Flagstaff, AZ 86001 | (928) 226–5468 |
| Ponderosa High School | Coconino County Regional Accommodation Sd | 9-12 | 53 | 2384 N. Steves Blvd., Flagstaff, AZ 86004 | (928) 779–6884 |
| Star Charter School | Painted Desert Demonstration Projects, Inc. | K-8 | 54 | 145 Leupp Road, Flagstaff, AZ 86004 | (928) 606–7419 |
| The Peak School | Peak School Inc., The | K-8 | 121 | 2016 North First Street A & B, Flagstaff, AZ 86004 | (928) 779–0771 |
| Mountain English Spanish Academy Of Flagstaff (m.e | Flagstaff Unified School District Charter School Board, Inc | 6-8 | 43 | 2300 E. 6th Ave., Flagstaff, AZ 86004 | (928) 773–4088 |
| Excel Education Centers Flagstaff Llc | Excel Education Centers Flagstaff, Llc | 9-12 | 74 | 2229 E. Spruce Ave., Flagstaff, AZ 86004 | (928) 214–7442 |
| Charles W Sechrist Elementary School | Flagstaff Unified District | PK | 508 | 2230 Fort Valley Rd., Flagstaff, AZ 86001 | (928) 773–4020 |
| Coconino High School | Flagstaff Unified District | 9-12 | 1351 | 2801 N Izabel Street, Flagstaff, AZ 86004 | (928) 773–8200 |
| Eva Marshall Elementary School | Flagstaff Unified District | K-6 | 522 | 850 Bonito St., Flagstaff, AZ 86001 | (928) 773–4030 |
| Flagstaff High School | Flagstaff Unified District | 9-12 | 1426 | 400 W Elm Street, Flagstaff, AZ 86001 | (928) 773–8100 |
| Flagstaff Middle School | Flagstaff Unified District | 7-8 | 744 | 755 N Bonito Street, Flagstaff, AZ 86001 | (928) 773–8150 |
| John Q Thomas Elementary School | Flagstaff Unified District | K-6 | 497 | 3330 E. Lockett Rd., Flagstaff, AZ 86004 | (928) 773–4110 |
| Leupp Public School | Flagstaff Unified District | K-8 | 209 | 3285 E Sparrow, Flagstaff, AZ 86004 | (928) 686–6266 |
| Lura Kinsey Elementary School | Flagstaff Unified District | K-6 | 448 | 1601 S. Lonetree Rd., Flagstaff, AZ 86001 | (928) 773–4060 |
| Manuel Demiguel Elementary School | Flagstaff Unified District | K-6 | 616 | 3500 S Gillenwater Dr, Flagstaff, AZ 86001 | (928) 773–4000 |
| Mount Elden Middle School | Flagstaff Unified District | 7-8 | 784 | 3223 N 4th Street, Flagstaff, AZ 86004 | (928) 773–8250 |
| Neil V Christensen School | Flagstaff Unified District | PK | 447 | 4000 North Cummings Street, Flagstaff, AZ 86004 | (928) 773–4140 |
| Project New Start | Flagstaff Unified District | 7-12 | 63 | 320 N Aztec, Flagstaff, AZ 86001 | (928) 773–8198 |
| Renaissance Magnet Middle School | Flagstaff Unified District | 7-8 | 79 | 3223 N. 4th Street, Flagstaff, AZ 86004 | (928) 773–8250 |
| Sinagua High School | Flagstaff Unified District | 9-12 | 1017 | 3950 E Butler Ave, Flagstaff, AZ 86004 | (928) 527–5500 |
| South Beaver Elementary School | Flagstaff Unified District | K-6 | 312 | 506 S. Beaver St., Flagstaff, AZ 86001 | (928) 773–4050 |
| Sturgeon Cromer Elementary School | Flagstaff Unified District | PK | 598 | 7150 E Silver Saddle Road, Flagstaff, AZ 86004 | (928) 773–4150 |
| Thomas M Knoles Elementary School | Flagstaff Unified District | K-6 | 667 | 4005 E Butler, Flagstaff, AZ 86004 | (928) 773–4120 |
| Thomas R Weitzel Elementary School | Flagstaff Unified District | K-6 | 0 | 3401 N 4th Street, Flagstaff, AZ 86004 | (928) 773–4090 |
| W F Killip Elementary School | Flagstaff Unified District | PK | 488 | 2300 E 6th Ave, Flagstaff, AZ 86004 | (928) 773–4080 |
| Weitzel's Puente De Hozho Bilingual Magnet School | Flagstaff Unified District | K-6 | 446 | 3401 N. Fourth Street, Flagstaff, AZ 86004 | (928) 773–4090 |
| Carden Of The Peaks | Private | K-6 | 6 | 7680 E Gemini Drive, Flagstaff, AZ 86004 | (928) 526–2789 |
| Flagstaff Cooperative Preschool | Private | PK | 200 | 850 N Bonito Street, Flagstaff, AZ 86001 | (928) 779–1441 |
| Mt Calvary Lutheran School | Private | PK | 65 | 2605 N Fort Valley Road, Flagstaff, AZ 86001 | (928) 774–8811 |
| St Marys Catholic School | Private | PK | 263 | 320 N Humphreys Street, Flagstaff, AZ 86001 | (928) 779–1337 |
