temporary use of hvac during construction

And a more subtle question, the contractor is considering "occupancy" the end of construction. The local municipality is awarding occupancy without having completed installation of the flooring (rubber flooring, stained concrete and carpet). They are suggesting that construction is completed and they can run the hvac without filtering and not violate the intent because construction dust is over. But the intent includes all airborne elements right, the intent of this credit is to prevent all elements entering the return air ducts, including anything related to the installation of flooring, is this correct? I know the answer, just looking for confirmation. Thanks.