Crystal Caves uses a two-dimensional side view. Mylo explores maze-like levels, collects crystals, avoids enemies and traps, and searches for the exit. Platforms, ladders, breakable objects, water, lava, and other hazards shape the routes through each stage.

The game is organized into three episodes, each containing multiple levels. Players advance by learning enemy patterns, finding safer routes, and managing lives and ammunition. Shooting handles many threats, but careful movement and exploration are often more important than combat.

Explore each level before committing to a route, because crystals and safer passages may be hidden behind obstacles.

Use weapons selectively and watch enemy movement before crossing narrow platforms. Avoid rushing through unfamiliar areas; traps and falls can cost a life quickly.