Tallink and other shipowners have been told they cannot appeal a ruling denying them a refund of what they claimed were excessive fairway dues in Finland.
Tallink and Finnlines said the Finnish Supreme Court did not grant leave to appeal last week.
The owners will now not be refunded more than $100m charged between 2001 and 2004.
TradeWinds has reported that shipping companies were originally awarded refunds in 2015, but this was overruled by the Helsinki court of appeal last August. This ruling now stands.
The application was made by 52 foreign and Finnish shipowners also including Viking Line and ESL Shipping.
They claimed that the Finnish Act on Fairway Dues, as it was applied before 1 January 2006, was contrary to EU legislation.
Finnlines was supposed to get EUR 17m ($18.9m), Tallink-related companies around EUR 34m, Viking Line EUR 12.4m and ESL Shipping EUR 3m.
Finland was originally ordered to pay EUR 91m in total.
