Zirconium metal–organic frameworks (MOFs) can be promising adsorbents for various applications as they are highly stable in different chemical environments. In this work, a collection of Zr-MOFs comprised of more than 100 materials is screened for CF₄/CH₄, CH₄/H₂, and CH₄/N₂ separations using atomistic-level simulations. The top three MOFs for the CF₄/CH₄ separation are identified as PCN-700-BPDC-TPDC, LIFM-90, and BUT-67 exhibiting CF₄/CH₄ adsorption selectivities of 4.8, 4.6, and 4.7, CF₄ working capacities of 2.0, 2.0, and 2.1 mol kg⁻¹, and regenerabilities of 85.1, 84.2, and 75.7%, respectively. For the CH₄/H₂ separation, MOF-812, BUT-67, and BUT-66 are determined to be the top performing MOFs demonstrating CH₄/H₂ selectivities of 61.6, 36.7, and 46.2, CH₄ working capacities of 3.0, 4.1, and 3.4 mol kg⁻¹, and CH₄ regenerabilities of 70.7, 82.7, and 74.7%, respectively. Regarding the CH₄/N₂ separation, BUT-67, Zr-AbBA, and PCN-702 achieving CH₄/N₂ selectivities of 4.5, 3.4, and 3.8, CH₄ working capacities of 3.6, 3.9, and 3.5 mol kg⁻¹, and CH₄ regenerabilities of 81.1, 84.0, and 84.5%, in successive order, show the best overall separation performances. To further elucidate the adsorption in top performing adsorbents, the adsorption sites in these materials are analyzed using radial distribution functions and adsorbate density profiles. Finally, the water affinities of Zr-MOFs are explored to comment on their practical use in real gas separation applications. Our findings may inspire future studies probing the adsorption/separation mechanisms and performances of Zr-MOFs for different gases.