Bubble Hunter is a bubble-popping adventure in which the player helps a treasure hunter explore 30 levels across islands that feature ancient city ruins and volcanoes. The player's goal is to collect masks, gems and other treasure and 90 gold stars while popping hanging bubbles and earning points.
The player uses a magical shooter with a floating platform and pointer. To clear the field of bubbles to reach the treasures, they must shoot projectile bubbles directly in a straight line or indirectly via angled wall shots at two or more matching connected bubbles. They can make each shot count most by swapping the two available projectiles whenever the first projectile doesn't match any exposed bubbles along or near the bottom of the hanging ones.
Bubble Hunter rewards the player with black bubble bombs after a certain amount of play. The player can remove matching and non-matching bubbles in a group with a bomb. On some levels, the game places bombs among the hanging bubbles. When this happens, the player can shoot a projectile of any color at one and cause an explosion. Other types of challenges include dropping rocks by using angled shots to hit bubbles above the rocks and destroying skulls with two or more hits.