There are two ways to do it now. You can start an expedition with your current save, or start an expedition with a fresh save. If you have an existing save and you have access to the Space Anomaly already (it doesn't take much to get to this point), I'd recommend to do it from the existing save. Eventually, towards the end, remember to end the expedition with the reward ship selected as your active, so you have a chance to customize it when you continue with the current save.
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