When you put in the information to process the amendment, the refund showing on your original tax return is considered funded and taken into account against any new amounts you should owe or be refunded. If your new amount does not show an amount due nor a new refund amount, the amendment results in a net 0 tax effect.
If you have not already received your original refund, you still will unless the IRS adjusts your original return for some reason.
@gvp2614
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