"As a theory of mind (which it is not always), emergentism differs from idealism, eliminative materialism, identity theories, neutral monism, panpsychism, and substance dualism, whilst being closely associated with property dualism. " (WP)

As a theory exclusively of the mind, I can see that emergentism has implications like property dualism, but not as a theory that treats the brain just as a very complex system with similar issues to other complex systems.