Jodorowsky's Dune Uncovered
Scene 145-150 : Atomics!
A hurricane is blowing across the desert, and Paul comes out of a small shelter to look down at the Emperor's encampment, protected by an energy screen. Paul orders the use of atomics to destroy the shield and cannons to take out their air support.
Inside the tent the Baron is brought in, and the Emperor accuses the Baron of being a traitor, plotting to unite the Fremen against him. The Baron denies it, and the Emperor introduces Alia - sister of Paul Muad'Dib Atreides!
The Emperor tells Alia to get in touch with Paul and tell him to surrender, but Alia says that the Emperor no longer gives any orders, that Paul is now the Emperor!
Suddenly the atomic bomb goes off, taking out the shield, and the hurricane, along with thousands of Fremen rush into the encampment.
Back in the tent the room vibrates and walls crack. The Baron grabs Alia, but she stabs him with a poisoned needle, instantly killing him.
Fremen burst into the room, but the Sardaukar manage to escape with the Emperor through a hole in the wall. Outside the Emperor sees the battle - dead Sardaukar litter the ground and Fremen drive sandworms into the encampment.
Other Sardaukar bring the Lady and Count Fenring to the Emperor, and they decide to "surrender" - they have a plan...
With no Moebius storyboards available for these scenes it is impossible to know how they'd compare, but as the script roughly follows Frank Herbert's novel perhaps the boards would have too.