In the Dune series of novels, many of the Great Houses of the Landsraad own "family atomics" as heirlooms, keeping a secure, hidden cache as weapons of last resort in their wars. Though such possession is necessary to secure power, the use of atomics against humans violates the chief prohibition of the Great Convention, the "universal truce enforced under the power balance maintained by the Guild, the Great Houses, and the Imperium. Paul notes in Dune:
The language of the Great Convention is clear enough: "Use of atomics against humans shall be cause for planetary obliteration."
The atomics themselves serve two political purposes: firstly, they act as a military deterrent — any House which violates the Great Convention flagrantly (such as using atomics openly in warfare) faces the possibility of massive retaliation from any of the other Houses. This leads to the second use of family atomics: there is an agreement with the Spacing Guild that any House which faces certain ruin and defeat is allowed to relinquish control of their family atomics in exchange for guaranteed safety by the Guild, allowing a "defeated" House to flee into a safe exile, and to avoid the possibility of a cornered House lashing out senselessly with its atomics.
In Dune, Paul Atreides uses an atomic device on the surface of Arrakis to blast a pass through a wild desert mountain range called the Shield Wall. Paul considers this act to be in accordance with the Great Convention because the atomics are not used against humans, but rather against a geological feature.
Atomics are also used in the Prelude to Dune series by Emperor Shaddam Corrino IV. In 10,175 A.G. Shaddam starts the "Great Spice War" with the secret aim of emptying the spice hoards of the Imperium and eventually destroying Arrakis, thereby ensuring his monopoly based on the synthetic spice of Project Amal. Under the guise of punishing House Richese for their hoard, Shaddam mercilessly destroys the artificial laboratory moon of Korona with atomics. A quarter of Richese's population go blind from the resulting light produced by the destruction of the Richesian mirrors stored there.
In the Legends of Dune prequel series, the first human victory of the Butlerian Jihad (the war against the thinking machines) is the 200 B.G. destruction of Earth and the Earth Omnius using atomics. "Pulse atomics" calibrated for use against the gel circuitry of the thinking machines are also used at end of the war to systematically wipe out every single machine-controlled planet.
Paul remained silent, thinking what this weapon implied. Too much fuel in it and it'd cut its way into the planet's core. Dune's molten level lay deep, but the more dangerous for that. Such pressures released and out of control might split a planet, scattering lifeless bits and pieces through space.
In Dune Messiah, a stone burner is used in an attempt to assassinate Paul Atreides; he survives but is blinded for the rest of his life. In the Prelude to Dune prequel series, the persecuted Earl Dominic Vernius plans to use forbidden atomics to attack the Imperial capital, Kaitain; when his hidden base on Arrakis is discovered by the Padishah Emperor's Sardaukar army, Vernius ignites a stone burner to destroy himself and as many of the Sardaukar as he can.