The Secretariat is the executive Organ of the Community. As the guardian of the Treaty, it ensures that regulations and directives adopted by the Council are properly implemented.

In service of the Community, the Secretariat comprises the Secretary-General, 2 Deputy Secretaries-General, the Counsel to the Community and hundreds of EAC staff members who carry out the day-to-day work of the EAC as mandated by the Council.

The Secretary-General is the principal executive and accounting officer of the Community, the head of the Secretariat and the Secretary of the Summit; he/she is appointed by the Summit for a fixed five-year, non-renewable term.

The Deputy Secretaries-General are appointed by the Summit on recommendations of the Council and on a rotational basis. They deputise the Secretary-General and each serves a three-year term, renewable once.

The Counsel to the Community is the principal legal adviser to the Community.

The East African Court of Justice (or simply, the Court) is the principal judicial Organ of the Community and ensures adherence to the law in the interpretation and application of compliance with the EAC Treaty. It was established under Article 9 of the Treaty for the Establishment of the East African Community.

Arusha, Tanzania is the temporary seat of the Court until the Summit determines its permanent seat. The Court established its Sub-registries in the Partner States, which are located in the premises of the National Courts.

The Court is currently composed of ten judges, appointed by the Summit from among sitting judges of any Partner State court of judicature or from jurists of recognised competence, and the Registrar who is appointed by the Council of Ministers.

The Court has two divisions: an Appellate division and a First Instance division.

The East African Legislative Assembly (EALA) is the Legislative Organ of the Community and has a cardinal function to further EAC objectives, through its Legislative, Representative and Oversight mandate. It was established under Article 9 of the Treaty for the Establishment of the East African Community.

The Assembly has a membership comprising of 63 elected Members (9 from each Partner State), and 9 ex-officio Members consisting of the Minister or Cabinet Secretary responsible for EAC Affairs from each Partner State, the Secretary-General and the Counsel to the Community totalling 72 Members.

The Assembly draws the authority to establish its Standing Committees from its Rules of Procedure. It currently has 6 Standing Committees to execute its mandate:

     -the Accounts Committee;
     -the Committee on Legal, Rules, and Privileges;
     -the Committee on Agriculture, Tourism and Natural Resources;
     -the Committee on Regional Affairs and Conflict Resolution;
     -the Committee on Communication, Trade and Investment, and
     -the Committee on General Purpose.

The EALA Commission which oversees the management of the Assembly is established following the enactment of the Administration of the EALA Act 2012.

The Civil Aviation Safety and Security Oversight Agency works in the civil aviation sector towards air transport services that are safe, efficient and profitable as well as adoption of common policies and harmonisation of civil aviation rules and regulations.

The East African Community Competition Authority (EACA), which is an institution of EAC is mandated to promote and protect fair trade and to ensure consumer welfare in the community pursuant to EAC Competition Act, 2006.

Specifically, the Act is aimed at enhancing the welfare of the people of the Community by:

i) Protecting all market participants freedom to compete by prohibiting anticompetitive practices
ii) Protecting the opening of partner states markets against creation of barriers to interstate trade and economic transactions by market participants
iii) Guaranteeing equal opportunities for market participants in the Community - SMEs
iv) Guaranteeing a level playing field –eliminating any discrimination by partner states on the basis of nationality or residence
v) Providing consumers access o products and services at competitive prices and better quality
vi) Providing incentives to producers – improvement of production and products through technical and organizational innovation
vii) Promoting economic integration and development in the community by creating a conducive environment for investment in the community and bringing the EAC competition policy and law in line with international best practice.

The East African Development Bank offers structured financial products and services to organisations in the health, education, hospitality and tourism, infrastructure development, energy and utilities, and agriculture sectors.

The East African Health Research Commission coordinates and maps out a regional agenda on health research as well as the translation of its results into policy and practice within the Partner States.

The East African Kiswahili Commission coordinates and provides advice to the Partner States on all matters related to Kiswahili research, teaching, learning and development as the lingua franca of the Partner States.

The East African Science and Technology Commission governs the Partner States co-operation in the development and implementation of Science and Technology.

The Inter-University Council for East Africa coordinates harmonisation of higher education and training systems in East Africa, facilitates their strategic development and promotes internationally comparable standards and systems.

The Lake Victoria Fisheries Organization promotes sustainable utilisation of fisheries of the Lake.