The club made an early impression by reaching the first Welsh Amateur Cup final in 1890–91, losing to Wrexham Victoria 4–1.

[2] Arthur Bartley, who played as goalkeeper for Flint, died from injuries sustained during a match in August 1891, thus becoming the first known fatality in modern Welsh football.

[4] Founder members of the North Wales Coast League the club won the inaugural championship in 1893–94 by two points over runners-up Llandudno Swifts, remaining unbeaten in their twelve games.

Led by Captain Emlyn Jones, Flint reached the 1925 Welsh Cup final only to lose to Wrexham's professional team by 3 goals to 1.

In 1930 Flint Town joined the newly formed Welsh League which operated between 1930 and 1935, winning the title in 1933–34 season, scoring 99 goals in only eighteen games.

Under the management of Billy Russell Flint became a formidable side in the early 50s, with the pinnacle achievement coming in 1954 when they won the Welsh Senior Cup.

Inspired by Welsh International Billy Hughes, whose career was disrupted by the war, overcame Holywell Town, Owestry Town, Rhyl, Llanelly and a semi-final 2–1 win over First Division Cardiff City, in front of a crowd of 10,683 at the Racecourse, Wrexham, beating third division Chester City 2–0 in the final, again at the Racecourse Ground Wrexham in front of a crowd of 15,584.

Consolation was winning the North Wales Challenge Cup at Colwyn Bay, beating league rivals Prestatyn Town 1–0.

A disastrous 1-nil defeat in the third round of the Welsh Cup by South Wales 3rd division side AFC Llwydcoed, made worse when they were drawn at home to Aberystwyth Town.

Only three games played between December and the beginning of February due to the weather and a home defeat by Connahs Quay Nomads in the 1st round of the N.W Challenge Cup.

Niall McGuinness was named the manager of Flint Town United F.C in November 2017 after Andy Holden, a former Everton and Hibernian coach, stepped down after a series of mediocre results.

The Flint Town United Football Club academy is known as one of the best in North Wales as a lot of there youth products achieve great things.