In accordance with the provisions of Act 12 of 2003, the Institute was brought under the supervision of the Federal Ministry of Science and Technology (FMST) in the year 2003. The first Council was inaugurated on the 27th of May, 2004 by the Honourable Minister of Science and Technology, Professor Turner T. Isoun. The Governing Council consists of:

• the President of the Institute, as Chairman.
• the Vice President of the Institute as Vice Chairman.
• a representative of the Federal Ministry of Education (FME).
• a representative of the Federal Ministry of Science Technology and Innovation (FMSTI).
• a representative of the Federal Ministry of Finance (FMF).
• one person representing Public Interest.
• twelve members of the Institute are nominated by the Association of Science Laboratory Technologists of Nigeria (ASLTON); with two persons representing each of the six geo-political zones of the Federation in rotation for a term of three years.
• The DG/Registrar/CEO as Secretary.

At the moment, the Institute does not have Governing Council.