At the Shadow Gate around the Stone Flower there are statues with colors on it. Press X in it and it will ask you if you want to see the past, touch the East, West, North or South key. There will be options to choose from. This is where you must enter the code. The code for the Shadow Gate is: Bottom Right: Water. Bottom Left:Fire. Top Left: Earth. Top Right: Wind. After that there should be a rumbling noise and the Stone Flower should open and bloom. Noa and Gala will both say something before.