Early years During the early 1920s, sports activities began being organised in the city of
Fier, much like other cities in Albania at the time. Students from the region returning from their studies in larger Albanian cities and abroad had learned about football, which they then played back in Fier, which soon became so popular that almost every neighbourhood in the city had children and adults alike playing football. The first official football game to be held in Fier was organised by the Bashkimi Culturual Society on 17 July 1924, which was played between a selection of players from Fier and neighbouring city
Vlorë. The following summer in 1925, a group of local students led by
Namik Resuli founded the Shoqeria Sportive Apollonia, which translates in English to the Apollonia Sports Society, taking the name from the nearby ruins of the ancient Illyrian city of
Apollonia. The club was a multidisciplinary one, ad featured one of the first official football clubs in Fier. In 1927 the club's name was changed to SK Myzeqeja and the following year in 1928 the club became a fully professional one, and along with this re-organised its structure by adding the club's regulations and the board of directors, who would plan every activity and match held by the club.
1930–1945 In 1930, the
Albanian Football Association was established and the first officially recognised competitions were held in the country. The club had entered to compete in a national competition for the first time, and were placed in the inaugural second tier championship along with
Shqiponja Gjirokastër,
SK Lushnja,
Bardhyli Lezhë and
Muzaka Berat. Before the championship had begun, the club had renamed itself to SK Fier, thus dropping the Apollonia from the name. Muzaka Berat won the first second tier championship and they achieved promotion to the old
First Division, with SK Fier, Shqiponja Gjirokastër, Bardhyli Lezhë and SK Lushnja missing out on promotion. There was no Second Division held the following year in 1931, but the competition returned in 1932 and was played in three groups between April and May. SK Fier competed in Group B along with
Erzeni Shijak,
SK Kavajë,
Kongresi i Lushnjës and
Muzaka Berat, where SK Kavajë finished top of the group and progressed to the final stage against
SK Vlorë, who they beat to win the competition. For the following two seasons SK Fier competed in Group B of the Second Division to no avail as they failed to the reach the final stage of the competition. There were no footballing activities held in 1935, but with their return in 1936, SK Fier did not compete in the Second Division initially. However, due to the financial problems of the original finalist
Leka i Madh Përmet the club was invited by the Albanian Football Association to compete in a rematch tournament, where SK Fier finished in third and last place with 3 points, behind
Kongresi i Lushnjës who also had 3 points and the winners and the promoted side
Tomori Berat with 5 points. Between 1937 and 1939 there was no Second Division held, and shortly after
World War II broke out which meant that many clubs including SK Fier ceased sporting activities until 1945.
1945–1949 Following the return of football activities, the club changed its name back to Apollonia Fier and began functioning in 1945 and entered to compete in the top flight for the first time, participating in the
1945 Albanian Championship, where they were placed in Group B. The club finished sixth out of seven teams in the group, with 2 wins, 1 draw and 6 losses, earning them a total of 7 points and a goal difference of −19 as they conceded 28 goals and only scored 9 in total. They were eventually relegated and as there was no Second Division held at the time the club was reduced to playing friendly games, before successfully joining the
1948 Albanian Championship, again in Group B. Their second top flight season proved to be far more successful as they finished in third place out of eight sides, with 7 wins, 5 draws and 2 losses and a total of 19 points, just one point behind group winners
Flamurtari Vlorë. However, due to changes in the format of footballing competitions by the Albanian Football Association, in order to employ a western format, the club was unable to play in the 1948–49 Albanian Championship as they were placed in the new eight-team Second Division, where they were ranked second behind
Partizani Tirana B before the competition was annulled under Soviet pressure who ordered the reinstatement of the Soviet format.
1990–present After the fall of communism just like in every club in Albania, many players left to continue their career abroad. In 1992, the football branch was separated from the main club and continued as
KF Apolonia Fier under chairman
Koço Kokëdhima. The club started its revival in 1997 after making some impressive appearances to end in the fifth place. The next season the club would finish in a disappointing seventh place but they managed to reach for the first and only time in their history the final of the
Albanian Cup. The club would face in the final their arch-rivals
KS Lushnja. Apolonia managed to win the game with 1–0 and bring home the only cup. From 2001 onwards, the club took the name "FK Apolonia". After some good years in the
Albanian Superliga, the club got relegated in 2002–03. Apolonia stayed in the Second Division until their promotion in 2005–06 when they finished as runners-up. Romanian
Silviu Dumitrescu, who has a lot of experience, was the new coach for the 2006–07 season. On 10 October 2006, Dumitrescu resigned and was replaced by
Dhimitër Papuçiu. Even though he started with some good results the club could not manage to leave the last place of the table. Papuçiu was replaced by
Andrea Marko at the start of 2007. But their Superliga season would be difficult and they would finish bottom of the table. In the next season after a hard-fought championship they managed to get promoted back to the Superliga. This season under manager
Esad Karishik they have managed to establish themselves in the middle of the table. ==Stadium==