Will we then find the Winnower/Gardener(if they are the same) and use it to defeat the witness?
The Winnower in my mind is the sole source of Darkness, so could he drain the witness of its power?
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I'm almost certain this will happen. The Winnower talks to us in the Book of Unveiling and it doesn't refer to itself as we. In P53 it mentions anyone using its power to circumvent the very reason it exists will receive a punishment that grows in proportion to the cheaters success. The Witness want the flower game antics to end. It doesn't want only the strongest beings alive. It wants an end to existence and the Winnower knows its going to have to give us something to save the Traveler and prevent the Witness from accomplishing its goal. I can see Light and Dark saga ending with the Winnower and Gardener deciding to leave their logic in the universe and let beings decide their own des--uh, fate with it. Basically existing as watchers and when the universe runs its course, begin a new flower game with new rules.