When two packages are named the same, one will inevitably be replicated in before the other. The loader will choose the first. This means that seemingly at random, a conflicting package and its modules will fail to load in-game, giving you the typical xxxx not a child of folder error.
While this isn't undesired behaviour, a more descriptive error should be thrown. You normally see this error when you've mistyped a module name, it's easy to misattribute the cause.
This only occurs with .bootstrapGame, affecting both the client and server.