have you received the refund? you should not file an amended return until the original return is fully processed and you get whatever refund the IRS calculates. then you need to enter the actual refund you received in the amended return. The amended return you prepared assumes you got or will get the $3,000. If you get it you are now owed $0. The amended return reduced the refund from $3,000 to $1,000 so now you have to repay the $2,000 excess you got. This is why you have to wait. If the IRS changes your refund, you will be filing an incorrect amended return.
