I am not an IRS rules guru but I am aware of the restriction regarding checks payable to corporations. My instinct is that if the corporation can arrange ACH transactions (payroll), write checks to the principals (bonuses,etc.), then why can't they transfer from the corporate account to personal accounts of the principals of the corporation. It is their responsibility to file W-2s or 1099s with the IRS to report the income. And I might add, their accountant's or tax preparers responsibility to assure that happens.
I don't think it's the bank's concern to whom it pays money to.
Be advised, I am not rendering any legal opinion - only my thoughts on the issue.
Allan D. Virr, CRCM