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Abstract An emerging chalcogenide perovskite, CaZrSe₃, holds promise for energy conversion applications given its notable optical and electrical properties. However, knowledge of its thermal properties is extremely important, e.g. for potential thermoelectric applications, and has not been previously reported in detail. In this work, we examine and explain the lattice thermal transport mechanisms in CaZrSe₃using density functional theory and Boltzmann transport calculations. We find the mean relaxation time to be extremely short corroborating an enhanced phonon–phonon scattering that annihilates phonon modes, and lowers thermal conductivity. In addition, strong anharmonicity in the perovskite crystal represented by the Grüneisen parameter predictions, and low phonon number density for the acoustic modes, results in the lattice thermal conductivity to be limited to 1.17 W m⁻¹ K⁻¹. The average phonon mean free path in the bulk CaZrSe₃sample (N → ∞) is 138.1 nm and nanostructuring CaZrSe₃sample to ~10 nm diminishes the thermal conductivity to 0.23 W m⁻¹ K⁻¹. We also find that p-type doping yields higher predictions of thermoelectric figure of merit than n-type doping, and values ofZT~0.95–1 are found for hole concentrations in the range 10¹⁶–10¹⁷ cm⁻³and temperature between 600 and 700 K.