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There are many weapons in Mutant Year Zero: Road to Eden, some more powerful than others. Each Stalker has at least one weapon and can carry up to two. A good rule to keep in mind is that silent weapons are almost always very useful. The ability to take single enemy targets out before the rest of their group notices can be extremely helpful.
Every weapon in the game can be upgraded by using weapon parts. These parts can be found when scouring the Zone for helpful loot. Weapon parts can be used at Delta's Fix Pit in the Ark to create and upgrade weapons. Delta can also break down weapons to get more weapon parts.
All weapons have three levels, and the higher the upgrade, the more it costs. A good tip is to only upgrade the most useful weapons.