Here's one I frequented semi-regularly when I lived in Tokyo. It is also maybe one of the most iconic game centers, being in Akihabara right outside the metro station with a large "SEGA" sign. Super not sketchy, mostly normal and mostly young people, no smokers, several women, even people there as couples.

SEGA Akihabara Building 3 +81 3-5297-3601 https://maps.app.goo.gl/S9PTNg7Yn29Wfcee9

I really think the OP was actually describing what in English we would call casinos (pachinkos) rather than arcades (game centers).