The principal bench of the NCLT headed by Chairman Justice M M Kumar also imposed a cost of Rs 10 lakh on Mistry's two investment firms, which would be shared by both.
Last month, the National Company Law Appellate Tribunal (NCLAT) had granted Mistry waiver in the minimum shareholding rule for him to file a case of alleged oppression of minority shareholders after observing "exceptional" and "compelling circumstances" in the entire episode.
The Mistry family owns 18.4 per cent stake in the closely-held Tata Sons. The holding is less than 3 per cent if preferential shares are excluded, not meeting the criteria of at least 10 per cent ownership in a company for the filing of a case of alleged oppression of minority shareholders.
It had directed the NCLT, which had previously dismissed Mistry's petition against Tata Sons on the ground of not meeting the minimum shareholding criteria, to decide the case in three months.
Mistry has been locked in a legal battle with the Tatas since his unceremonious exit as chairman of Tata Sons -- the promoter company of the $105-billion salt-to-software Tata group -- in October last year.
Mistry was ousted as Tata Sons chairman on October 24, 2016, and was also removed as a director on the board of the holding company on February 6, 2017.
Following that, both the investment firms had moved the appellate tribunal.
The NCLAT, however, dismissed another petition filed by the Mistry family's investment firms on maintainability, saying the firms do not have more than 10 per cent in Tata Sons.