First 50 years

Formed in 1949 by Jimmy Drinkwater, the club was initially named Stockton Heath Albion and competed in the Warrington and District League until 1953, when they moved to the Mid Cheshire League. Freddie Worrall became manager at the same time, and during a 13-year spell in charge, the club won the league in 1959–60 plus the League Cup in three consecutive seasons during the 1950s. During his thirteen years at the helm, Heath were one of the most feared sides in Cheshire football, winning a string of honours including the Mid Cheshire League Championship in 1959–60, the League Cup in 1953–54, 1954–55, 1955–56 and made several appearances in the Cheshire Amateur Cup Final. Several players from this successful period went on to join Football League clubs, including Ian Weir, John Green, Alan Foster and Roger Hunt, later a World Cup winner with England in 1966.

At the club's 1961 AGM, it was decided to change the name to Warrington Town. In 1978 the club were founder members of Division Two of the Cheshire County League.^[2] When it merged into the North West Counties Football League in 1982, the club were founder members of Division Three. They finished as runners-up in the first season, earning promotion to Division Two. In 1985–86 Warrington reached the semi-finals of the FA Vase, losing 6–3 to Halesowen Town in a replay. After finishing as runners-up in Division Two in 1986–87, the club were promoted to Division One.^[2] In the same season they reached the FA Vase final, where they lost 3–2 to local rivals St Helens Town

In 1989–90 Warrington Town won Division One, and were promoted to the Northern Premier League. In 1992–93 they reached the quarter-finals of the FA Trophy, eventually losing 2–1 at Sutton United, and also became the first Division One club to reach the final of the League Cup, losing on penalties to Winsford United. The season also saw the club sell Neil Whalley to Football League Third Division side Preston North End for a £25,000, equalling the record fee paid for a Northern Premier League player. A few weeks later Warrington also sold Liam Watson to Preston for a record £60,000.

After finishing second bottom of the league in 1996–97, the club were relegated back to Division One of the North West Counties League. The following season they were demoted, failing ground grading.^[2] In the 1998–99 season, teenage striker Damien Whitehead set a new club record of 52 goals in just 42 appearances, before signing for Football League Division Three side Macclesfield Town at the end of the season.

21st century

The 1999–2000 season saw Town win the Second Division Trophy beating Tetley Walker 2–0 at Prescot Cables, with two goals from Neal Holden. The following season they won Division Two and were promoted back to Division One. They finished fifth in 2003–04, and were moved to Division One of the Northern Premier League as part of the restructuring that led to the creation of the Conference North and Conference South. When Division One was split into northern and southern sections in 2007, the club were placed in the southern division, but were moved to the northern section the following season.^[2]

In 2013–14 the club finished third in Division One North, qualifying for the promotion play-offs, where, they lost 1–0 at home to Bamber Bridge in the semi-finals. Former Director of Football, Toby Macormac, became the new club Chairman and took the club from strength to strength and started by reaching the first round proper of the FA Cup for the first time in their history in 2014–15 , where they beat League Two club Exeter City 1–0 with a 7th-minute header from Craig Robinson, in a giant-killing at Cantilever Park shown live on BBC Two.^[3] In the second round they lost 0–2 at Gateshead,^[4] televised live on BT Sport. Later in the season the club lifted its first trophy in 14 years by defeating Farsley Celtic on penalties in the final of the Northern Premier League Challenge Cup, held at Edgeley Park.

During the 2015–16 season the club set many new club records including scoring over 100 league goals and also winning over 30 league games in one season. Attendances at the club increased with a seasons average of 418 per game, including two crowds of over 1,000 for the games against Northwich Victoria and Prescot Cables. The Club Chairman decided to part company with manager Shaun Reid by mutual consent in February 2016, replacing him with Stuart Mellish and Lee Smith. Mellish and Smith led Town to the league title, finishing 15 points clear and setting division records of 106 points and 121 goals scored, and gaining promotion to Northern Premier League Premier Division. Team captain Ciaran Kilheeney was the top scorer in all 3 NPL divisions with 37 league goals, and he, James McCarten and goalkeeper Karl Wills were named in the NPL Division One North team of the season.