It has to do with the rate of tax applied to a foreigner who is share holder / Director of a Thai Registered Company with Registered Capital Valuation of 4 million Baht - in my case. Such a shareholder / Director pays taxes on a mandatory monthly salary of 50k baht - whether I pay that amount to myself or not. I watched my very smart and sharp accountant go to a published table of tax rates adjustable by age. In my case of my 'young' age (having visited Thailand first time 51 years ago as a soldier for a year 😁 ) - my rate of witholding tax for the imagined salary of 50k a month was a whopping 420 baht a month.... That's How.
You may end up having shadow employees. The social security taxes for 4 Thai Employees is close to 4k a month. Plus income tax withholding for the 4 employees is about 1k each month and for the foreigner share holder / director anywhere from 500 to 1k a month depending on age.
Your Work Permit and one year Extension of the B Visa estimates are way too high.
Combined - 90 day B Visa / Work Permit and One Year B Visa Extension should not cost more than 23k total for all. This includes Account's preparation of all company documents. But you do have to pay taxes for the time leading up to the Extension- but it is not a bank account buster - however a bit complicated to go into here