Containment Cubes first appear during the opening chapter of Ghostwire: Tokyo and will play an important role for those hoping to unlock the game's true ending. They contain the spirits of the people who were raptured as part of Hannya's evil scheme to resurrect his wife and daughter, which players will need to protect from the Visitors that are trying to harvest the souls for their master's dark cause.
Ghostwire: Tokyo — After the End Side Mission Guide
In total, there are 10,000 Spirits trapped inside these cubes, meaning that Ghostwire: Tokyo players are going to have to find an awful lot of them in order to see the game's true ending. Thankfully, they're fairly plentiful and show up quite often while players explore the city around them, meaning that it shouldn't take too long to reach the required amount.
Given the fixed Spirit total, many players will probably find themselves wondering what happens if they accidentally miss a containment cube. Due to the way that they sometimes spawn on the tops of nearby buildings which can take longer to climb than the game allows, it's almost inevitable that players will fail to protect a cube or two during their playthough.
The good news is that failing to protect a containment cube won't prevent players from fully completing the game. Granted, players won't get the Spirits that were inside any failed cubes at that time, but they will be able to find an unlimited supply of fresh Containment Cubes until they hit their 10,000 Spirit target. They'll just need to keep exploring Tokyo, and be sure to keep one eye on the mini-map.
Finding Containment Cubes is something that should happen naturally as players make their way around the city. They usually spawn in groups of two or three and
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