Are you saying that the S-corp has a loss carryover? If so, it should not. All income and loss items flow-through to the shareholders. They are then responsible for tracking their stock and debt basis in the S-corp, in order to determine if losses are deductible in the current year or not. Any losses that are not deductible in the current year get carried forward at the shareholder level until that shareholder has sufficient basis to deduct the losses. As long as the S-corp return properly reported and allocated all income and loss items to the shareholders, there is no need to amend the return, since it is not the S-corp's responsibility to track basis. If the shareholders deducted losses in excess of their basis in prior years, they will need to amend their personal returns.
Please clarify your situation, if I am misinterpreting it.