Mega Turrican follows the story of Mega Turrican 's protagonist as he battles against the Dark Forces. The game takes place after many years of peace, where the enemy has gathered once again to cause chaos. With the help of his team, the USS Freedom Forces, the player's goal is to defeat the Dark Forces and complete numerous large levels.
Gameplay involves exploring various levels, searching for secrets, and fighting against enemies. The player can collect three upgradeable shots: a multiple, a laser, and a rebound. These shots can be upgraded as the player progresses through the game. Additionally, the player has access to wheel-mode, which makes them invincible and allows them to lay mines or explore previously unreachable areas. The player must use their skills strategically to overcome obstacles and defeat enemies.