In 2003, the idea of having an Indian based Football Association was brought upon to MIFA's pioneer members S. Pathy, S. Rajamanikam and M.S.

MIFA serves as a springboard for young Indian football players who harbour the desire to elevate their skills.

The first tournament organised by MIFA was the inaugural Samy Vellu competition which was won by Selangor.

Maniam Cup, which was one of the key factors in the growth of Malaysian Indian football community.

After two years without silverware, the club has increased their budget for the 2016 Malaysia FAM League, setting it to RM 800,000 in their bid to win the third division.

[7][3][8] The club has set aside a decent budget of RM 3.5 million for their maiden season in 2017 Malaysia Premier League.

[9] In the 2018 Malaysia Premier League season, MISC-MIFA improved their standings by finishing third in the league, and also delivering shock in 2018 Malaysia Cup season by beating defending champions Johor Darul Ta'zim FC in the group stage,[10] although they failed to advance.