Puzzles in "Flower, Sun, and Rain" all follow a similar pattern, with Mondo being asked by NPCs to help them with a problem. Puzzles are solved using "Catherine", a suitcase-bound computer that Mondo carries with him at all times. Puzzles are initiated when locating environmental cues or talking to NPCs. All puzzles revolved around four-digit numerical combinations, the correct combinations being hinted at through dialogue and other clues: an example puzzle is taking a birthday and manipulating the numbers in some way, through either physically flipping them or rearranging them, to find the correct code. The player may also need to solve math or logic problems to deduce the correct code.