Hello. I am confused. I see a lot of fate cards, wisdom cards and other cards mixed together but in order in terms of IDs in right upper corner. When I am starting all decks that are talked about in set up are ones without IDs? Other cards I just store in box untill they are asked to find by game?
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Correct. You should keep all of the numbered cards stored in the box for now, even if they look like influence/item/fate/flaw cards. You're only supposed to look at them when the game tells you to (for example, a secret script might say "Gain item card I-03 D").
You also won't need most of the un-numbered cards straight away. I'd suggest starting with the "setting up your first game" rules and the tutorial Dream, rather than the full Setup rules.