So we have a prophecy, of the witness communing with the traveler, drinking the light...I guess another stating it would infect the light with darkness.
The alpha lupi lore, maybe other stuff too, make it seem like it used to be powerful, and it realizes it will be powerful again (referencing the traveler here). Well, what if the communion, the infection is...memory or consciousness. Maybe we woke the traveler, maybe we healed, what if now it's meant to have its consciousness and memories back. All the ghosts get funneled back in, and we get to meet the real traveler...and it turns out to be a sadistic lil -blam!-. (I kid)
Edit: Managed to still forget another thing. So we have the nine which have consciousness, that started as a loop...and kind of like algorithms for AI minds began to expand that loop of thought. I'm thinking though, the universe itself is the conscious entity, and birthed other ideas that began to think on its own...man, it doesn't sound right. We will use strand to pluck upon the consciousness of reality, like we are the sub thought, from a sub thought. Still not coming out right, oh well.
Also, still think the witness is an avatar for the Warmind...felt like I need to keep that fire lit, and keep the rage going.
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The Ghosts needing to come back and reform is a valid idea. They are part of its mind but the the ghost in We before Us could still feel the kernel of the Gardners mind remain. So along that line, to fully heal it may need to recall all Ghosts. Also Alpha Lupi also mentioning the knife just away more then flesh. It did reference a lack of being able to recognize itself. This could be viewed as memories being taken away from it.