I personally would be cautious since our checking account at times has large sums of money in it. If I kept less than $100 I wouldn't stress it. Even if the worst happened you can probably make much more than you lost. This way you lose altogether by not working for a company who is using an accepted and probably safe method of payment.
If someone is that worried they could open a savings account just for MS payments like I did. Then we move them around to checking or other accounts as needed. You could also move it to Pay Pal. Although I understand Pay Pal uses the same verification so that's another payment method you don't get to use. You may as well go back to cashing checks and burying the cash in the back yard.