Mohiam predicted the Jihad in the first chapter:
"I see in the future what I've seen in the past. You well know the
pattern
of our affairs, Jessica. The race knows its own mortality and fears
stagnation
of its heredity. It's in the bloodstream -- the urge to mingle genetic
strains
without plan. The Imperium, the CHOAM Company, all the Great Houses,
they are
but bits of flotsam in the path of the flood."
This is what Paul called his "Race Consciousness".
Muad'dib's Jihad was not political, it was religious. As an above
poster stated, he was a legitimate emperor, but he had to stamp out
the old religions and enforce his at the point of a cryskinfe.
Muad'dib's Jihad was a band-aid where Leto II's Golden Path was a cure
for humankind's stagnation.


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