Following the conclusion of Professor Layton and the Miracle Mask, the Azran Legacies, (The Garden of Healing, The City of Ambrosia and The Infinite Vault) relics of an ancient civilization, are now possessed by a mysterious organization named Targent, who wish to utilize the Azrans' power for themselves. In addition, Jean Descole, Targent and Professor Layton's rival, also wishes to utilize the Azran Legacies, thus setting the stage as the conflict for the Legacies unfolds. The story follows Professor Hershel Layton, his assistant Emmy Altava, and his apprentice Luke Triton as they travel to the snowladen city of Froenborg to investigate a 'living mummy'. There, they find a girl named Aurora, who comes from an ancient, mysterious race known as the Azrans, frozen in ice. After freeing her and realizing she has lost her memory, their investigation takes them around the world to jungles, deserts, a rural town and more as they search for the truth behind the mysterious Azran civilization and the hidden treasure it holds.