S
- Sabae
- Saga
- Sagae
- Sagamihara
- Sagara
- Saijō
- Saiki
- Sakado
- Sakai
- Sakai, Gumma-ken
- Sakaide
- Sakaiminato
- Sakata
- Saku, Nagano-ken
- Sakura
- Sakurai
- Sanda
- Sanjō
- Sano
- Sapporo
- Sasaguri
- Sasayama
- Sasebo
- Satte
- Sawara
- Sayama
- Sendai
- Sendai, Kagoshima-ken
- Setaka
- Seto
- Shibata
- Shibetsu
- Shibukawa
- Shibushi
- Shido
- Shiki
- Shimabara
- Shimada
- Shimminato
- Shimminatochō
- Shimo-furano
- Shimoda
- Shimodate
- Shimonoseki
- Shingū
- Shingū, Fukuoka-ken
- Shinichi
- Shinjō
- Shinshiro
- Shiogama
- Shiojiri
- Shiozawa
- Shirahama
- Shiraoi
- Shiraoka
- Shiroi
- Shiroishi
- Shirone
- Shisui
- Shizukuishi
- Shizunai
- Shizuoka
- Shōbara
- Shōbu
- Sobue
- Sōja
- Sōka
- Sueyoshi
- Sugito
- Suibara
- Suita
- Sukagawa
- Sukumo
- Sumoto
- Sunagawa
- Susaki
- Suwa
- Suzaka
- Suzuka