In its detailed report on the matter submitted to the ministry recently, the Serious Fraud Investigation Office (SFIO) flagged various violations by individuals and entities related to the now-defunct Kingfisher Airlines, which was owned by Mallya.
The ministry has given its approval for the SFIO to file prosecution cases in the Kingfisher Airlines matter, the official said.
The charges for prosecution would be filed against Mallya and others for various violations of provisions under the companies law before a special court here.
Sources said that a meeting of various probe agencies like the SFIO and the Enforcement Directorate (ED) was recently held to discuss taking "collective action" in this case.
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Mallya, who has been based in the UK for a long time, is wanted in India for Kingfisher Airlines' default on loans worth nearly Rs 9,000 crore and some other matters.
The ED and the Central Bureau of Investigation (CBI) have already filed their separate charge sheets against the businessman and other accused.
According to sources, the SFIO is believed to have recommended various actions against individuals and entities for violations in the Kingfisher Airlines matter.
The probe agency had red-flagged a slew of violations of companies law by Mallya, Kingfisher Airlines and officials, including serious corporate governance lapses.
The role of independent directors and whether they failed in discharging their duties during their tenure at the airline has come to the fore, sources had said earlier.
The probe agency, which comes under the ministry, had investigated alleged diversion of funds and financial reporting frauds at the carrier, which was grounded in 2012.
The 61-year-old flamboyant businessman wasarrested in London in October in a money laundering case filed by the Enforcement Directorate, before being released on bail by Westminster Magistrates' Court.
Mallya, already out on bail on an extradition warrant executed by the Metropolitan Police earlier this year, was released on the same bail conditions as before to appear for his trial on December 4.