Have you managed to find some solution since the time you posted your question?
I would also like to invite few of our lovely Hosts from Japan if they have some suggestions for us on which is the best payment method : @Rie9@Ken2@Shinya0 . I hope they might be able to help us with some tried and tested advice!
Basically, as in other countries, there are several ways to receive hosting income. Outside the U.S., bank transfers are the simplest. I also use Japan Post Bank (Yucho Ginko), so others can also receive earnings there. I remember that it takes a few days to get approval if you specify Yucho Ginko in the "Add a method of payment" section of your account, but I believe it is available.
You will need a SWIFT number and other information.