All passengers to Wuhan had boarded the flight from Delhi with Covid negative reports, Air India said in a statement.
Announcement in Malayalam could have saved lives, a passenger told The New York Times.
The special audit will be over and above routine checks, the DGCA chief said.
Centre announces Rs 10 lakh relief for deceased, State follows suit
18, Including 2 Pilots Dead in Air India Flight Accident, Passengers Stuck In Plane's Wreckage Rescued
The flight was part of the Vande Bharat programme that was bringing back Indians from abroad.
The evacuated citizens will be sent to the Institutional Quarantine facilities set up by the district administrations in their respective districts, Kerala government officials said.
The total number of active coronavirus cases in India has gone up to 2,650 and the death toll to 68.
The minister said that while procedures have been laid down to ensure the safety of passengers, this incident called for "quick action".
Malegaon blast accused Pragya Thakur had delayed a flight by 45 minutes in December because of an argument over her seat allotment.
Aviation minister Hardeep Singh Puri took notice of the incident and “advised” other airlines in India to impose similar restrictions on Kamra.