Mishra was sacked on May 6 and two AAP legislators — Rajendra Pal Gautam and Kailash Gehlot — were inducted in the cabinet.
A top official in the government said the files pertaining to the appointment of Gautam and Gehlot were sent to the Home Ministry just after the city cabinet decision to remove Mishra.
There was no official word from the Home Ministry over the allegations. Mishra held the portfolios of water, tourism, art and culture.
Before him, AAP MLA Sandeep Kumar was sacked from the cabinet after an objectionable video allegedly involving him emerged last August.
No new face had replaced Kumar and Sisodia has been taking care of his portfolios — social welfare, and women and child welfare among others.