[3] Plans for Eunoia Junior College were first announced on 1 September 2010 as part of an expansion of the Integrated Programme (IP) to seven more schools.

[5] The name of the junior college was announced on 29 December 2015 by Acting Minister of Education (Schools), Ng Chee Meng, in an MOE ceremony at Shangri-La Hotel to appoint and appreciate the country's principals.

[3] Eunoia Junior College welcomed its pioneer batch of students in 2017 and held its inaugural assembly on 20 February that year.

It was announced that the college's permanent campus located off the junction of Sin Ming Avenue and Marymount Road will be ready in late 2019, owing to the delay in the construction of the Cross Island line.

The circular shape of the crest signifies the holistic development of the students, while the oriental theme provides a contrast to the college's name "Eunoia" adapted from the western Greek.