Get your taxes done using TurboTax

No.  Your refund comes from the IRS.  After Turbo Tax transmits your return to the IRS they are done with their part.  They don't touch your refund. 

 

If the IRS doesn't send your refund in a certain amount of time or reduces your refund, Turbo Tax still needs to get paid.

 

Were the fees supposed to come out of your refund?

Sounds like the IRS is taking too long to send your refund or reduced it.  See What if the IRS reduces your refund or delays it.

https://ttlc.intuit.com/community/payments/help/what-if-my-federal-refund-isn-t-enough-to-cover-my-t...

 

Then when the IRS does send your refund they won't take the fees out again.

 

And, Why you got charged,

https://ttlc.intuit.com/community/charges-and-fees/help/why-was-my-bank-account-auto-debited-for-tur...

 

You should have received about 4 emails asking for the fees.  If you don't pay they will debit your account.  You had to agree to it.