| 1 | mts al mutaqin balikpapan | jl. letjen s. parman no. 25 rt. 26 | kel. gn sari ulu |
| 2 | mts raudhatul ulum | jl. sei wain rt.34 km.15 | karang joang |
| 3 | mtsn 1 balikpapan | jl. jend. a yani rt. 061 no 19 | - |
| 4 | mtsn 2 balikpapan | jl. jl. tanjung kelor rt 06 no. 10 manggar baru | - |
| 5 | mtss al-muttaqien | jl. s. parman rt 26 no. 25 | balikpapan tengah |
| 6 | mtss asy syifa balikpapan | jl. soekarno hatta km. 4,5 | - |
| 7 | mtss darussalam | jl. soekarno hatta km. 1,5 rt 26 | - |
| 8 | mtss hidayatul mustaqim | jl. pendidikan rt 17 | - |
| 9 | mtss ibnu khaldun | jl. semoi rt. 013 | - |
| 10 | mtss mardhatillah | jl. soekarno hatta km.8 | batu ampar |
| 11 | mtss raadhiyatan mardhiyyah putra | jl. mulawarman rt 25 | teritip |
| 12 | mtss radhiyatan mardhiyah putri | jl. mulawarman rt. 25 | - |
| 13 | mtss sabilal muhtadien | jl. p. antasari rt. 62 no. 51 | - |