Court spokesperson Kristina Ots told The Baltic News Service that the bankruptcy petition was filed by the company itself.
Superseacat announced in mid-October that it was discontinuing its service between the Estonian and Finnish capitals.
An earlier report suggests both of its vessels have been detained in Gdansk, Poland.
According to the Krediidiinfo credit record database the company has accumulated a tax debt of 1.3 million kroons (83,000 euros) and also owes port fees to Port of Tallinn.
OU Superseacat made a loss of 2.7 million kroons on sales of 45.3 million kroons in 2007.
The court session to review the bankruptcy petition will take place at the courthouse in Kentmanni street in Tallinn on Dec. 2.