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Amended returns should only be done when the original return has been fully processed and the original return is in hand.   If you don't send in the required form to support the credit then the return will be recomputed by the state and the original refund will be reduced so you will not need to amend the return.   If you look at the amendment it will reflect the refund you did not get ... if you zero out that amount and recompute the rest of the return you should see the corrected refund that the state will also come to.   Read the notice carefully ... do they require you to amend  OR  will they make the correction for you if you do not respond or respond that it was a mistake.  Follow the notice directions carefully.