Ruby and her father think they hit a patch of good luck when they inherit an orchard in a place called Emerald. They soon discover things are not as they seem when they find an enchanted well on the property.

Ruby, Sam, and Mina fulfil the wish of the town librarian, leading them on a treasure hunt to uncover a centuries-old mystery and Emerald's best kept secret.

A wish leads Ruby to Lucy's Flower Shop, where she meets the Brogden family who are in crisis just as a wedding is about to take place. The kids try to help, but are greeted by an intimidating figure who has just been released from prison.

Ruby receives a wish about trust, just as she is about to betray her father's trust by sneaking out to a party for older kids without his permission.

Ruby finally tells her father about the wishing well, but his reaction is more confused and concerned than amazed. The kids respond to a wish coming from a local bee farmer, which proves difficult for Sam, who has an extreme fear of bees.

When Ruby gets a wish involving a wisher who wants to stop pretending, the kids have a lot of theories about who it could be. Ruby becomes especially discouraged by the Wellkeeper's Logbook, which boasts of clever past keepers.