Your case is relating to non-fulfillment of prescribed procedures, refer 194C(7).
As per law, yes tds return should be revise and audit report will not show the correct picture after that.
It is asserted by many AO to file the revised return. However, if it is genuine transaction and PAN number is provided then addition cannot be made. Even if it is made then it will be a fit case to appeal.
It’s better to make understand the officer about the situation as it will not make any impact. If that is also not enough… stretch a bit as the time-limit for your case shall be 31.03.2017 and chance that the current officer might get transferred in this time frame.