Ministers voted overwhelmingly in favour of the bill with just three voting against it.
The interception by NATO's Baltic Forces is the biggest one by the unit in 2015.
President Dalia Grybauskaite has said that the country's "aggressive" neighbours mean that the measure should be reintroduced.
Officials in the Baltics are calling for higher NATO vigilance as Russia steps up drills.
Both men are accused of spying for Belarus, a close ally of Russia.
The Lithuanian ministry of defence points to "Russia's aggression against its neighbours" as reason for the project
The 70th anniversary of the end of WWII, known as Victory Day in Russia, is expected to be the biggest to date
Several members of the Lithuanian armed forces that worked at a sensitive NATO base have been detained