He claimed that the state government's order was "illegal" and "unconstitutional".
In the petition, filed yesterday, which came up for hearing before Justice C L Soni today, Chaudhary challenged the order passed by the state Registrar of Cooperative Societies in December last year.
Through the order, Chaudhary has been barred from holding any position in any cooperative society as well as from contesting polls in such societies for a period of six years.
Since the order will come into effect after one month of issuance as per the Supreme Court directive, Chaudhary may have to step down as chairman of Dudhsagar dairy on January 16.
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During the hearing today, Chaudhary cited that the current order does not stand legal scrutiny as the matter is still pending in the Supreme Court and an interim order was also passed (by the apex court) in his favour in March last year.
In reply, appearing for the state, Additional Advocate General Prakash Jani argued that the order is legal and valid.
Government urged the court that his petition should be dismissed as the alternate remedy of filing an appeal with government is still available with him.
Further hearing on the petition is expected to continue tomorrow.
In 2014, Chaudhary has been first sacked as chairman of GCMMF, which markets its dairy products under Amul brand name.