I'm not a financial advisor so I'm not up on all the crazy hybrid schemes out there.  How can there be an IRA where the bank can determine the basis?  All IRAs are aggregated for tax purposes so any one bank issuing a 1099-R would have no way of knowing for certain (not certain enough to report it on a tax form anyway) whether or not the taxpayer make a non-deductible contribution to an IRA at another bank.

You can have a non-qualified annuity where the bank CAN determine basis, but in the cases I've seen for those, the IRA box is not checked.

If I ran into something like this, I would have to have a three-way call (or skype or zoom, whatever the kids are using these days) with the taxpayer and the bank/financial advisor so the bank/FA could explain to me under what circumstances they could issue a 1099-R with the IRA box checked and the not-determined box unchecked.