The team was previously named Burevestnik (1957), Tomich (1958, 1961–1963), Sibelektromotor (1959–1960), Torpedo (1964–1967, 1974–1978), Tomles (1968–1973) and Manometr (1979–1987).

Viktor Sebelev, Valery Konovalov and Ruslan Akhidzhak were key players of the early part of the decade with Sergei Ageyev, Vyacheslav Vishnevskiy and Dmitry Kudinov strengthening the team as they made a run on the division championship.

In 1997, Tomsk finally achieved a significant goal when they advanced to the First Division with a strong season performance.

The former jersey sponsor Tomskneft, a local subsidiary of Yukos, has recently been sold to new investors.

[2] At the end of the 2018–19 season, they qualified for the Premier League promotion play-offs, but lost to FC Ufa with an aggregate score of 1–2.