Also, there's a meet up this week on Thursday (I think -- https://hntokyo.doorkeeper.jp/) if you're free to come to that, and you can meet some of the community.
I also know a fantastic accountant that has helped me since I got to the country, along with a great lawyer that has helped me renew my visa every year as I run my own tiny tiny consultancy.
Feel free to email me as well -- I am in just about the exact same boat as you except I went the 合同会社 route. Please don't do anything rash until you at least attend the meetup this week https://hntokyo.doorkeeper.jp/ and talk to some people who can help.
[EDIT] - Considering the off-chance that you don't go to the meet up or contact me -- what you can do is actually get a contract position at a software company in Japan (check out AngelList, Glassdoor, whatever), you can actually find a company that will contract with your company DIRECTLY -- then you can put some money in the bank and feel like you're being productive.
Also, I've never known anything to generate better motivation to work on your own stuff than building someone else's stuff. So I'm sure after a few months you'll find some more motivation to work on your own stuff.
You probably need to dump your accountant -- sounds like they're not anywhere near useful enough -- I use http://www.mimaki-tax.com/.