The table shows the highest mountains by prefectures of Japan. Where the highest point of a prefecture is not a peak, it will be separately described.
| Prefecture | Mountain | Elevation (m) | Cordillera | Note | Image |
|---|---|---|---|---|---|
| Hokkaido | Daisetsuzan (Asahi-dake) | 2,291 | Ishikari Mountains | 100 Famous Japanese Mountains | |
| Aomori | Mount Iwaki | 1,625 | Standalone | 100 Famous Japanese Mountains | |
| Iwate | Mount Iwate | 2,038 | Ōu Mountains | 100 Famous Japanese Mountains | |
| Miyagi | Mount Byōbu | 1,825 | Mount Zaō | 100 Famous Japanese Mountains | |
| Akita [1] | Mount Akita-Komagatake (Onagadake) | 1,637 | Ōu Mountains | 200 Famous Japanese Mountains | |
| Yamagata | Mount Chōkai (Shinzan) | 2,236 | Hinotodake Mountains | 100 Famous Japanese Mountains | |
| Fukushima | Mount Hiuchigatake (Shibayasugura) | 2,356 | Standalone | 100 Famous Japanese Mountains | |
| Ibaraki | Mount Yamizo | 1,022 | Yamizo Mountains | 300 Famous Japanese Mountains | link |
| Tochigi | Mount Nikkō-Shirane | 2,578 | Nikkō Mountains | 100 Famous Japanese Mountains | |
| Gunma | Mount Nikkō-Shirane | 2,578 | Nikkō Mountains | 100 Famous Japanese Mountains | |
| Saitama | Mount Sanpō | 2,483 | Okuchichibu Mountains | | |
| Chiba | Mount Atago | 408 | Bōsō Hill Range | JASDF Mineokayama Sub Base [2] | |
| Tokyo | Mount Kumotori | 2,017 | Okutama | 100 Famous Japanese Mountains | |
| Kanagawa | Mount Hiru | 1,673 | Tanzawa Mountains | 100 Famous Japanese Mountains | |
| Niigata | Mount Korenge | 2,766 [3] | Northern Alps | | |
| Toyama | Mount Tate (Mount Ōnanji) | 3,015 | Northern Alps | 100 Famous Japanese Mountains | |
| Ishikawa | Mount Haku (Gozengamine) | 2,702 | Ryōhaku Mountains | 100 Famous Japanese Mountains | |
| Fukui | Mount Sannomine | 2,095 | Ryōhaku Mountains | Southern peak of Mount Sannomine | |
| Yamanashi | Mount Fuji (Kengamine) | 3,776 | Standalone | 100 Famous Japanese Mountains | |
| Nagano | Mount Hotakadake | 3,190 | Northern Alps | 100 Famous Japanese Mountains | |
| Gifu | Mount Hotakadake | 3,190 | Northern Alps | 100 Famous Japanese Mountains | |
| Shizuoka | Mount Fuji (Kengamine) | 3,776 | Standalone | 100 Famous Japanese Mountains | |
| Aichi | Mount Chausu | 1,415 | Minomikawa Highland | | |
| Mie | Mount Ōdaigahara (Hinodegatake) | 1,695 | Kii Mountains | 100 Famous Japanese Mountains | |
| Shiga | Mount Ibuki | 1,377 | Ibuki Mountains | 100 Famous Japanese Mountains | |
| Kyoto | Mount Minago | 972 | Tamba Mountains | | |
| Osaka [4] | Mount Yamato Katsuragi | 959 | Kongō Range | 300 Famous Japanese Mountains | |
| Hyogo | Mount Hyōno | 1,510 | Chūgoku Mountains | 200 Famous Japanese Mountains | |
| Nara Prefecture | Mount Hakkyō (Mount Hakken) | 1,915 | Kii Mountains | 100 Famous Japanese Mountains | |
| Wakayama [5] | Mount Ryūjin | 1,382 | Kii Mountains | | |
| Tottori | Mount Daisen (Kengamine) | 1,729 | Daisen Mountains | 100 Famous Japanese Mountains | |
| Shimane | Mount Osorakan | 1,346 | Kanmuri Mountains | | |
| Okayama | Mount Ushiro | 1,345 | Chūgoku Mountains | link | |
| Hiroshima | Mount Osorakan | 1,346 | Kanmuri Mountains | | |
| Yamaguchi | Mount Jakuchi | 1,337 | Kanmuri Mountains | | |
| Tokushima | Mount Tsurugi | 1,955 | Shikoku Mountains | 100 Famous Japanese Mountains | link |
| Kagawa | Mount Ryūō | 1,060 | Sanuki Mountains | | |
| Ehime | Mount Ishizuchi (Tengadake) | 1,982 | Shikoku Mountains | 100 Famous Japanese Mountains | link |
| Kochi | Mount Miune | 1,893 | Shikoku Mountains | 200 Famous Japanese Mountains | |
| Fukuoka [6] | Mount Shaka | 1,230 | Tsue Cordillera (Shakagatake) | | |
| Saga | Mount Kyō | 1,076 | Tara Mountains | 300 Famous Japanese Mountains | |
| Nagasaki | Mount Unzen (Heisei Shizan) | 1,486 | Unzen Mountains | 200 Famous Japanese Mountains | |
| Kumamoto | Mount Kunimi | 1,739 | Kyushu Mountains | 300 Famous Japanese Mountains | |
| Ōita | Mount Kujū (Nakadake) | 1,791 | Kyushu Mountains | 100 Famous Japanese Mountains | |
| Miyazaki | Mount Sobo | 1,756 | Kyushu Mountains | 100 Famous Japanese Mountains | |
| Kagoshima | Mount Miyanoura | 1,936 | Yakushima | 100 Famous Japanese Mountains | |
| Okinawa | Mount Omoto | 526 | Ishigaki Island | |