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In Dune (2021), Dr. Yueh checks vitals on Paul before Paul meets Bene Gesserit:
Dr. Yueh: The Bene Gesserit say they serve the greater good... But, meaning no disrespect to your lady mother... they also serve their own designs.
What "designs" is Dr Yueh referring to?
To the outside observer, the Bene Gesserit can appear to be a mysterious cult which has insinuated itself into positions of influence. They are called "witches", because they exhibit abilities and powers that outsiders do not understand and are fearful of.
Who knows what plans (designs) such a group may have?
Interestingly, Yueh was himself married to a Bene Gesserit. However, it is unlikely that she was completely open with him.
Even Jessica holds some secrets from Leto (such as having Paul suffer through the Gom Jabbar), despite loving him enough to disobey her orders to only produce female offspring that could be married off to selected genetically compatible suitors in order to achieve their goal of a Kwisatz Haderach.
