Governor K Rosaiah accepted the recommendation of the chief minister and dropped Krishnamoorthy from the council of ministers, a Raj Bhavan statement said.
Housing Minister R Vaithilingam will hold additional charge of the Agriculture portfolio, it added.
Krishnamoorthy, earlier dropped from the cabinet before being re-inducted, was on March 5 stripped of key party posts by AIADMK supremo Jayalalithaa.