The game, like many 'classic' adventure games, is viewed from a third-person perspective and is mouse driven with the player clicking on locations for the main character to move to, objects to examine or pick up, etc.
The central protagonist of Secret Files: Tunguska is a young Russian woman called Nina Kalenkow, the daughter of scientist Victor Kalenkow. He has mysteriously disappeared and Nina sets out to find him - during the game the central character sometimes switches to Max Gruber, a colleague of Victor Kalenkow's (some puzzles can best be solved by using the alternative character if both are present at the location). Their investigations lead them to Tunguska, Siberia, the location of a mysterious and devastating explosion in 1908.