The case was registered after a quick verification found out that "there was prima facie corruption", Vigilance sources here said.
The FIR would be submitted at the Vigilance court in Muvattupuzha, they said.
The Vigilance Director had last month ordered the quick verification on the basis of complaints submitted by Kerala Hotel Industrialist Association that the former minister had conducted "blatant abuse of power and corrupt practices."
"Corruption and irregularities have been found in various things including in awarding bar licenses, in the closure of beverages corporation outlets and setting the department's norms and policies in this regard," the sources told PTI.
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The mandatory criteria was not followed in the closure of beverage outlets and the minister "illegally" intervened into the matter, the sources added.
This is the second vigilance case in the bar scam against Babu, who had unsuccessfully contested from Tripunithura in the May 16 assembly polls.
Babu had resigned as excise minister on January 23 this year in the wake of a Vigilance court directing filing of an FIR against him in the bar bribery case, on the allegation by hotelier Biju Ramesh that he had accepted Rs 10 crore as bribe for renewal of licences of bars.