Minister of state Mukhtar Abbas Naqvi has been given independent charge of ministry of minority affairs.
Babul Supriyo has now been given the charge of the ministry of heavy industries and public enterprises.
Supriyo has been relieved of the charge of minister of state in the ministry of urban development, and minister of state in the ministry of housing and urban poverty alleviation.
The resignations come a week after PM Modi carried out a major expansion and reshuffle of his Cabinet on July 5.
The exercise saw induction of 19 new faces in the ministry and changes in key portfolios of several ministers.