When your return is sent to the IRS they can tell what form/situations are in the return. Since yours has the CA MCTR issue the IRS may be trying to decide what they are going to do with it since a decision as to if it is taxable or not has not been decided. They may reject the return and have you make the correction or accept it themselves and make the correction for you. It is possible their system is not yet updated to handle this new developement... time will tell.
