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The choice of timing for amending State tax returns
is really up to you. You could amend the returns for the items that you agreed with the IRS on. This would stop the interest
and penalties that the various states charge on the unpaid balance due. It would also start the statute of limitations
running on these issues. Then when the final issue is decided, you an amend once again. This would only be necessary if the issue were not decided in your favor.
Alternatively, you could wait until the USTC makes its final decision, but that could be a year or more away. During this time, the states would continue to charge interest and penalties, increasing your costs.
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