The official formalization of the current timeline for the UP National College of Public Administration and Governance Student Council (UP NCPAG SC) traces back to academic year 1992-1993, as the then-College of Public Administration (CPA) moved from Rizal Hall, UP Manila to its own college building in UP Diliman. With the reinstatement of the Bachelor of Arts in Public Administration (BAPA) degree back in 1988, the UP CPA SC signified the growth of increased student representation within the college.

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The undergraduate students brought vitality to the College's events and its involvement in campus life under the direction of the UP CPA SC; in the 1993 UP Lantern Parade, they took first place for the college's most symbolic lantern. However, in just two years, the CPA community mourned the loss of Dennis Venturina, UP CPA SC Chairperson and graduating BAPA student, who was slain in a fraternity brawl in December 1994. However, this did not deter CPA from continuing forward with its pursuit of good governance in public administration education and research, especially with its transformation into the National College of Public Administration and Governance (NCPAG) in November 26, 1998. Fostering a close community, the college also earned third place in the 1999 UP Lantern Parade and top place in the Belen Competition.​

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Under the deanship of Maria Concepcion P. Alfiler (2001–2004), the UP NCPAG Student Government Office was built in 2000 with support from the Pagdumala Representative and the proceeds raised from the NCPAG Run. Meanwhile, the deanship of Dr. Alex B. Brillantes Jr. (2004-2010) oversaw the construction of the Student Tambayan Complex, capable of housing four (4) student organizations. 

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In 2012, the League of NCPAG Organizations was formally established as an independent body of unified college organizations, with its goals to foster unity and participation, advance the welfare of the NCPAG Community, and enhance public administration as a field of study. A spiritual successor to the earlier composition of the Student Council with appointed organizational representatives sitting within the study body, the LNO is composed of representatives (organizations’ head and externals) from each of the college's student organizations, with the NCPAG SC Vice Chairperson serving as its Convenor.​

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During the academic year 2013–2014, the 22nd UP NCPAG SC under Chairperson Raymond Rodis oversaw a significant restructuring that included a review and amending of its constitution. Among the many internal policy changes were the termination of the separate election process for Undergraduate and College Councilors towards a new set of Councilors elected at-large by the student body, the addition of a Ways and Means Administrator, and the strengthening of Batch Representatives as voting members. The following 23rd UP NCPAG SC under Chairperson Janella Santiago served as a transitionary council for the constitution, before the 24th UP NCPAG SC was elected under the new NCPAG SC Constitution under Chairperson Kirtham Dumpa.

In 2020, the college's highest student body faced its most daunting challenge, as the COVID-19 pandemic and subsequent lockdown led to the postponement of the UP Diliman student council elections and the enactment of holdover terms. Despite a limited manpower, the 28th NCPAG Student Council continued its term for an unprecedented 2 years, from 2019 to June 2021.