Z-Souls are primarily acquired through completing missions in Story Mode. Many missions have specific Z-Souls as rewards for completion or for achieving certain objectives, such as defeating all enemies within a turn limit. Some Z-Souls can also be found in Z Capsules, purchased with Zeni. Replaying missions on higher difficulties can sometimes yield better Z-Souls.

- Story Mode Rewards: Complete missions and objectives.
- Z Capsules: Purchase with Zeni in the shop.
- Arcade Mode: Some paths may offer Z-Souls as rewards.