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Feature engineering remains central to materials informatics, yet systematically introduces scientific blind spots that constrain discovery and interpretation. These blind spots arise from choices in descriptor selection, transformation, and dimensionality reduction that inadvertently prioritize statistical correlations over physical invariance, overlook multi-scale interactions, and embed dataset-specific biases into model architectures. In small-data regimes common to materials science, engineered features often amplify overfitting while diminishing generalizability across chemical spaces. Interpretability suffers as complex engineered descriptors obscure mechanistic linkages between atomic structure and macroscopic properties. Literature consistently highlights these limitations across perovskites, alloys, energy materials, and porous systems, underscoring the tension between predictive performance and scientific fidelity. This conceptual manuscript synthesizes these challenges and proposes an original Integrated Blind Spot Navigation Model (IBSNM). The framework organizes feature engineering around four interdependent pillars—physical consistency guardrails, multi-scale descriptor integration, uncertainty-aware selection, and iterative co-interpretation—linked by feedback mechanisms that surface and mitigate hidden assumptions. By reframing feature engineering as a navigable landscape rather than a static preprocessing step, the model offers a conceptual pathway toward more robust, transparent materials informatics practices that do not rely on empirical validation.