The DS version is mainly stylus-based with support functions and menu displays toggled by the R/L and directional buttons.

Combat is performed in real-time in a capture-the-flag format; the player is given 300 seconds to defeat the enemy general and capture his or her fortress.

In addition, enemy soldiers which are made to retreat cannot be redeployed, but allied units can be deployed any number of times as long as they still have hit points.

These are known as Duel Events, and the dialogue changes based on who is attacking whom and whether the clash ends in victory, defeat, or death.

Each card has different effects, which can be seen described either when they activate or examined in greater detail in the Extra Contents section after the game has been beaten once.

After this occurs, the enemy general will be brought to you as long as you have not killed them in battle, and you will have the opportunity to attempt to recruit them.

Some items have humorous equipment conditions that expose certain aspects of characters' personalities that could not be shown in Yggdra Union itself, which is why this game is seen as a "fandisc" to it.

If a player found either of the special event triggers, then that hidden character will also join the war publicly at this time.

If the player has discovered treasure hunt points during the battle phase, then during this phase of each turn, it is possible to spend the points earned during battles to deploy named generals to search for items in any area whose treasure hunt icon was found.

If the deployed unit has a favorable elemental affinity and move type, they will be able to return quickly, but if they have an unfavorable alignment, then the treasure hunt may take a number of turns to be completed.

When a treasure chest is discovered, it's possible to choose to keep searching for a different box, but if all 30 steps run out, then the unit must return empty-handed.

When the hidden condition has not been fulfilled, sending one of these certain characters (with the exception of the territory's owner) will result in the burlap sack appearing.

When these are not discovered, the game handles much the same as the original cellphone version; the special event items must be found in order to involve the new characters in the war.

In addition, fourteen new items are included in the DS version—six each for Nessiah and Mistel's territories, the Mirror of Truth as Mistel's event trigger, and the Cloverlight, which replaces the Revelation of the Gods (now Nessiah's event trigger) as the item in the Gorgeous Box at Castle Bronquia.

Yggdra Unison begins in the year 1490 M.D., with Emperor Gulcasa—the ruler of the New Bronquian Empire—and his vast army attacking and capturing Fort Karona, which lies on the border between his own nation and that of the Kingdom of Fantasinia, the country perceived to be the greatest world power.

[3] The player selects one of these nations, and their storyline unfolds as they conquer other territories, eventually culminating in their achieving world domination.

Sting's programmer JaJa began posting blog entries about Yggdra Unison's development as early as 2006.

[4] While this was changed to Yggdra Unison: Beat Out Our Obstacle, the original tagline was reused for the DS version.

Later in the year, on 25 March, a drama CD was released by Frontier Works, featuring the same voice talent as the PSP version of Yggdra Union.