While air conditioning can reduce humidity, if you have good insulation then your your HVAC won't run that often, but things like cooking and bathing will effect humidity levels, and so a separate apparatus is really needed for that. They're not unreasonably sized:
* https://www.youtube.com/watch?v=OKJnP_6uxcg * https://www.youtube.com/watch?v=D3wd2yVwzvE
Though this does depend slightly on air circulation, but a couple of tubes (e.g.) connecting floors would help balance things out.
Japanese companies produce many quality products that deal with indoor air quality:
* https://news.panasonic.com/global/topics/2017/53539.html
There are stand alone units as well:
* http://www.survivingnjapan.com/2012/08/a-guide-to-dehumidifi...
All that said, a proper building envelope is the first thing that needs to be done. Don't know enough JP codes and construction techniques to comment on that though.
Central air conditioning is not a thing in Japan. People install one split duct heat pump per room they expect to inhabit during summer/winter (generally living + bedroom) and only run those when they're in the room and for as few hours as they can (electricity is expensive)