Haven't seen the Lynch movie but I love the book. Paul himself wants to do everything in his power to stop the Jihad. He laments losing his friend Stilgar, as now the latter only sees Paul as a God and not himself. It's pretty clear from the book that Paul does not think these are Good Things, but realizes whatever he tries they're going to happen anyway, so he just tries to move things in a way that are the best outcomes for the Fremen within the bounds of what he can do.

Men make their own history, but they do not make it just as they please; they do not make it under circumstances chosen by themselves, but under circumstances directly encountered, given, and transmitted from the past. The tradition of dead generations weighs like a nightmare on the brain of the living.

I think Dune is actually a great example of that Marx quote above. There's nothing Paul can do to stop the Jihad or his own elevation to Divinity. They were already baked in. All he can do is go along with the tide.