| Aichi | ||
| Nakauri | nakauriite | |
| Shidara | pyroxmangite, yoshimuraite | |
| Akita | ||
| Hanawa Mine | fukuchilite | |
| Osarizawa Mine | osarizawaite | |
| Aomori | ||
| Yunosawa Mine | tsugaruite | |
| Ehime | ||
| Iratuyama | barroisite | |
| Iwagi | katayamalite, sugilite | |
| Nagahama | ribbeite | |
| Tobe | tobelite | |
| Fukushima | ||
| Iwaki | iwakiite, nambulite | |
| Karasugawa | fergusonite-beta-(Y) | |
| Tadano | wadalite | |
| Takatama Mine | tosudite | |
| Gifu | ||
| Hisu Kawa Mine | masutomilite | |
| Horado Mine | ferrobustamite, zincsilite | |
| Kamioka Mine | sauconite | |
| Kawai Mine | annite, ferrogedrite | |
| Kinjo Mine | trichalcite | |
| Gumma | ||
| Kurumazawa | dmisteinbergite | |
| Okumanza | minamiite | |
| Mokurasawa | suzukiite | |
| Rito Mine | jimboite | |
| Tatarazawa | ammonioleucite | |
| Hiroshima | ||
| Setagawa | kobeite-(Y) | |
| Hokkaido | ||
| Jokoku Mine | jokokuite | |
| Kokuriki Mine | okhotskite | |
| Mikasa | mikasaite | |
| Tatehira | kanoite | |
| Toyoha Mine | toyohaite | |
| Honshu Island | ||
| Shizuka Mine | tellurobismuthite | |
| Hyogo | ||
| Akenobe Mine | roquesite, stannoidite | |
| Asako | petrukite | |
| Ikuno | sakuraiite | |
| Oya | paragonite | |
| Iwate | enstatite | |
| Tanohata Mine | kozulite, natronambulite | |
| Kagoshima | ||
| Iriki Mine | vulcanite | |
| Sakkibira | osumilite | |
| Yamanoguchi | osumilite-(Mg) | |
| Kochi | ||
| Sarisaka | slawsonite | |
| Kumamoto | ||
| Taneyama Mine | taneyamalite | |
| Kyoto | ||
| Daimonji yama | indialite | |
| Kamo-cho | sonolite | |
| Ohnari Mine | pyroxferroite | |
| Mie | ||
| Shiraki | stevensite | |
| Miyazaki | ||
| Akadani | arsenic | |
| Nagano | ||
| Maeyama Ueda | andesine | |
| Suna Mine | tinticite | |
| Nagasaki | ||
| Suisho-Dake | quartz | |
| Nara | ||
| Godaimatsu Mine | ferro-actinolite | |
| Niigata | ||
| Ohmi cho | ohmilite, strontio-orthojoaquinite | |
| Okayama | ||
| Fuka Mine | bicchulite, henmilite, kilchoanite, morimotoite, nifontovite, oyelite, parasibirskite, takedaite | |
| Huga Mine | pentahydroborite | |
| Ningyo-Toge Mine | ningyoite | |
| Ohasa | stronalsite | |
| Ohhira Imasaki Mine | sudoite | |
| Sanpo Mine | hastingsite | |
| Saga | ||
| Kirigo | kimuraite-(Y) | |
| Saitama | ||
| Chichibu Mine | hydroxylellestadite | |
| Shiga | ||
| Ioi Mine | feitknechtite, shigaite | |
| Shizuoka | ||
| Kamitaga | laihunite | |
| Kawazu Mine | kawazulite, penwithite | |
| Miyake-jima | anorthite | |
| Noaki | pumpellyite-(Fe2+) | |
| Tohi Mine | wairakite | |
| Tochigi | ||
| Fukaiwa | imogolite | |
| Kyurasawa Mine | manganpyrosmalite | |
| Yamanashi | ||
| Kyonosawa | magnesiofoitite | |
| Ochiai Mine | pumpellyite-(Mn) | |
| Otome Mine | giessenite | |