You play as Valen, one of a select group known as Dragoon, who has just arrived in the town of Granadis for his graduation from the Academy. The legacy of the Dragoons reaches back to a time when an ancient hero allied himself with a Holy Dragon to combat the Dark Dragon. The duo managed to defeat the Dark Dragon, though the Holy Dragon died in the process, releasing his power into six elements that control the world. Dragoons are charged with protecting these dragons.
Before Valen's ceremony can begin, the Dark Dragon reappears and destroys the town. In the process, he shuts down the Dragon Gates, cutting off contact with the other elemental dragons. In the aftermath of the attack, the remaining Dragoons split up and journey to each of the dragon's regions to check on them. Valen is joined by a young girl named Euphe who mysteriously appears after the ceremony holding the Water Dragon's orb.
Dragoneer's Aria is, for the most part, a standard RPG. You travel from town to town discovering quests that take you to deep dungeons and usually end up with you discovering new allies and treasures. Gameplay is similar to later entries in the Final Fantasy series; dungeon exploration takes place from a third-person view. Dungeons are usually pretty big and have a certain linear openness. You are free to explore each area, though you still have a good idea about where to go in each since you have a map.
One of the better aspects of exploration is the lack of random encounters. Enemies appear on the play field, giving you a chance to avoid battles if you're in a rush or don't feel like fighting anyone. The trade-off is that you won't earn any experience, but that is to be expected.
Outside combat, you can also craft items, though you first need to purchase or find recipes for items. On one hand, this takes a little of the fun out of the system since you can't just randomly combine items and see what happens. Still, the system is useful - especially when you're deep in a dungeon with a full inventory and need a quick health boost or something.
Dragoneer's Aria also features a four-player Ad-Hoc mode, though I wasn't able to test this out.