Private onsen in Kyoto
A bath you have to yourself: no other bathers, and usually no tattoo problem either.
Is there a mixed onsen in Kyoto?
Not one we have found. Mixed bathing (konyoku) survives at mountain, riverside and seaside baths, and we have not recorded one in Kyoto. If what you want is to bathe together as a couple or a family, a private onsen is usually how it is done in Japan: the 7 below have a bath your group uses alone. Where Japan’s mixed baths are, and what to wear

SPA & HOTEL Suisyun Matsui-Yamate
水春 松井山手
Visited · No.10Tattoos not allowed (day visit)Tattoos not allowed (overnight)Private bathDay visits without staying
Sumiya Kihoan
京都 湯の花温泉 すみや亀峰菴
Policy not published (day visit)Policy not published (overnight)Private bathDay visits without staying
Syoenso Hozugawatei
湯の花温泉 松園荘 保津川亭
Policy not published (day visit)Policy not published (overnight)Private bathDay visits without staying
Kyoto Yunohana Resort Suisen
京YUNOHANA RESORT 翠泉
Policy not published (overnight)Private bath
Kyoto Keburikawa
里山の休日 京都・烟河
Policy not published (day visit)Policy not published (overnight)Private bathDay visits without staying
Kyoto Arashiyama Onsen Kadensho
京都 嵐山温泉 花伝抄
OK in a private bath (overnight)Private bath
Shotenkyo
久美の浜温泉郷 小天橋
Policy not published (overnight)Private bath
Day trips from Kyoto
The same list for places you can reach from Kyoto and be back the same day.