The Ministry is managed by the Minister, who is responsible for its activities.
In the Minister's absence, the State Secretary acts on the Minister's behalf within the scope of the Minister's rights and obligations. The Minister may also authorise the State Secretary to act on the Minister's behalf within the scope of the Minister's rights and obligations in other cases. When acting on behalf of the Minister at a Government meeting, the State Secretary has an advisory vote. The State Secretary is appointed and dismissed by the Government on the proposal of the relevant Minister.
In justified cases, particularly in the case of ministries covering several sectors, the Government may decide that two State Secretaries shall serve at the Ministry. The Minister determines the matters in which, and the order in which, the State Secretaries act on the Minister's behalf.
The Government may decide that three State Secretaries shall temporarily serve at the Ministry, provided that one of them is appointed solely to perform tasks related to the Presidency of the Slovak Republic of the Council of the European Union.
The organisational structure of the Ministry is determined by its organisational rules, which are issued by the Minister.
The Ministry is divided into sections and departments, or other organisational units, as appropriate. Sections are established primarily for individual areas of the Ministry's activities. Each section is headed by a Director General. Sections may be further divided into offices, departments or other organisational units of equivalent standing.
An office, department or other organisational unit is headed by a Director.