Note: Flags indicate national team as defined under FIFA eligibility rules; some limited exceptions apply.

The next 10 years were not marked by significant progress, but in 2004 Merw FK became one of the strongest football clubs in Turkmenistan.

Merw FK claimed the bronze medal for the second time in the 2004 Ýokary Liga and, in 2005, they won the Cup of Turkmenistan.

Their opponents in the Turkmenistan Cup final was Köpetdag Aşgabat (the game finished 1–1 after extra time and Merw FK won 3–1 on penalties).

[3] In the 2022 season, Magtymguly Begenjew as head coach led the team to the third place in Ýokary Liga,[4][5] securing a AFC Cup spot for the Merw FK after a 16-year[6] absence.