Designing synthesizable materials with targeted properties remains one of the central objectives in materials sciences. Ionic liquids (ILs) are well suited to this goal due to their "tunability", where physical and chemical properties can be precisely customized by modifying their molecular structure, specifically by varying the combination of cations and anions. At the same time, current data-driven property models for ionic liquids often degrade in scarce, noisy, and uneven data regimes, where measurements cover only a small fraction of chemical space and a limited range of thermodynamic conditions. This makes out-of-distribution screening brittle: even when point predictions look plausible, it is difficult to compare candidates consistently, quantify downstream implications, or trust rankings enough to guide molecular discovery. We present a property-prediction and optimal candidate selection workflow that treats data processing, deep learning modeling, and physics-based calculations as a coupled system, linking property prediction with uncertainty estimation and physics-based filtering. By tightening the link between predicted properties and the criteria used for down-selection, the workflow supports reliable out-of-distribution ranking and enables prioritization of previously untested ionic liquid candidates with favorable predicted trade-offs. We demonstrate the application of our workflow by designing novel ionic liquids for CO2 capture from flue gas, predicting their properties and selecting Pareto-optimal candidates based on CO2 solubility, IL viscosity and working capacity.

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