The functions of the counter-intelligence were carried out by the 2nd Board of the KGB of the LSSR, which was operating in 1960-1991. The 2nd Board carried out various functions: fought with the intelligence of the foreign special services, tried to infiltrate its agents into them and into the diaspora organisations, who made it easier for them to collect and analyse data on their activities. It constantly monitored foreign diplomats entering Lithuania, tracked tourists, recorded the relationships of the foreign people with the local residents, and searched for the so-called especially dangerous state criminals. The competency of the 2nd Board had also included the counter-intelligence in the districts of the border and military facilities, in major industrial and agricultural companies, rail and air transport, and the fishing fleet. It was responsible for the security of the state secrets in these objects as well as controlled the selection of the persons for the work with secret documentation. It carried out ideological counter-intelligence tasks until 1967: persecuted the participants of anti-Soviet organisations, authors and distributors of anti-Soviet documents in order to terminate their activities.
The 3rd Division
The Third Division of the KGB of the LSSR was established in 1984 on the basis of the division of the Second Board and existed until 1990. Its activities were an integral part of the counter-intelligence work. The major objective of this Division was to ensure the protection of military objects and paramilitary organisations as well as the secrecy and protection of the information related to their activities from the foreign special services. Moreover, to ensure that only reliable personnel is working at these strategically important objects. In addition, to monitor and track the personnel already working in these objects so that they would not engage in hostile activities, i.e. would not try to leak or disclose any secret information. Protection of strategic military objects and classification should have ensured that the West countries will not obtain any information about the military objects and weapons located in Lithuania. The Division is comprised of two subdivisions.
- Counter-intelligence activities in paramilitary organisations (the divisions of the Ministry of Interior, DOSAAF – Volunteer Society for Cooperation with the Army, Aviation, and Navy, military commissariats, civil defence headquarters) and protection of any other military objects;
- ensuring of the security of the state and military secrets in these objects;
The 4th Division:
The security of the transport sector, i.e. airports, seaports and transport, highways, railways and communication facilities, was extremely important area of the Soviet counter-intelligence, which was curated by the division of the 2nd Board of the KGB of the LSSR until 1981, and from 1981 – a newly established 4th Division of the KGB of the LSSR, which operated until 1991. The most important tasks of the 4th Division were:
- to ensure the regime of enclosure of certain Lithuanian territories and the control of movement inside the territory of Lithuania;
- with the help of the agency and operational measures to protect important objects of the transport sector from the intelligence activities of the foreign special services;
- to ensure the secrecy of the transportation of equipment for military industry;
- to protect the transport objects – vessels and aircraft – against the attempts to hijack. The 4th Division was comprised of three subdivisions.
- counter-intelligence in all transport objects;
- protection of communication facilities;
- protection of the state secrets;
- protection of the transport objects against diversions and other malicious activities, the search for "hostile" elements in the transport objects.
The 6th Division
The 6th Division of the KGB of the LSSR was established in 1982 on the basis of the 3rd Division of the 2nd Board. One of the main objectives of the Soviet counter-intelligence was to supervise, control and protect all strategically important Lithuanian industrial, economic and scientific areas and objects, which, in KGB opinion, were of interest to the foreign intelligence and were potential targets of the foreign agents. Extremely important area of activities – protection and ensuring of the secrecy of strategically important information, containing the state secrets, in the strategic objects. As well as the protection of the objects related to the military industrial complex and their classification by creating various undercover legends on their alleged activities. The level of the supervision of the objects served by counter-intelligence divisions of the KGB was determined by their strategic value to the economy, security and military industry of USSR. Therefore, the KGB aimed at ensuring that strategically important and secret information would not be leaked to the West countries, and the true potential of the Soviet economy and military industrial complex would not be disclosed. This should have also been guaranteed by the strict control of public information about the objects and the movement in the territory of these objects. These objects served by the KGB were named as “regime objects” due to the researches and production carried out there as well as due to the security and secrecy requirements for them and the departmental dependency (connections to the Ministry of Defence).
The 6th Division of the KGB of the LSSR was comprised of 3 subdivisions:
- Counter-intelligence activities in industrial companies and the institutes of scientific research. Ensuring of the secrecy and security of the information in state institutions and other strategic objects. Issuing authorisations to work with the secret information.
- Counter-intelligence activities in state institutions, which engage in the planning of economy, allocation of financing, and keeping of statistics.
- Counter-intelligence activities in scientific and other important economic objects. The control of the scientific, economic and technological exchanges with the West countries.
- to curb any attempts of the foreign intelligences to obtain strategically important information of the USSR in the fields of industry, science and economy;
- protection of strategically important objects as defence industries, the main economic objects, institutions of scientific research and the works carried out there as well as any secret information;
- protection of these objects against “ČP” (special incidents), sabotage, and potential “diversions” as well as the control and ensuring of the “secrecy regime”.