Pixel Tactics 2 is a head-to-head tactical combat game for two players. Each player has an identical deck of 25 cards, from which they will draft a leader. The leader's abilities vastly change the strategy and playability of every other card in the deck, making the game playable in 25 different ways.

In Pixel Tactics 2, players take turns placing cards and attacking. Cards can activate in various ways, taking on offensive capabilities in the front rows of the unit, or support powers in the back rows. Cards can also be played as orders – powerful single-time effects that can alter the tide of battle.

Play continues until either player's leader is beaten. A typical game is usually best of three or five rounds.

Pixel Tactics 2 takes place in the same universe and uses many of the characters from Level 99 Games' BattleCON: War of Indines, but its gameplay is entirely unrelated.