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question about Pygmy ending (SPOILERS)

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One thing is really confusing me here...was he never intending on killing everybody at the end? Or did he just decide not to once he realized cat sister was there? The latter makes more sense to me, but if he never intended on killing everybody, why did he try to get cat sister to leave? And if he was planning on killing everybody, and decided not to, how did he change his "science project" to be non-lethal? I think I missed something here.