The Earth Mover's Distance (EMD) is gaining increasing interest among political scientists for assessing similarity in preference distributions. However, there remains a risk of finite-sample upward bias induced by sampling variation in empirical probability measures, which is under-recognized by existing studies. This problem is especially severe in high-dimensional or sparse settings, including conjoint distributions that serve as an illustrative example in this paper. As political scientists are broadening their use cases of EMD, this paper cautions against interpreting standard bootstrap uncertainty bounds as a correction for the upward bias of empirical EMD. It proposes a permutation-based null calibration framework for more robust hypothesis testing. As a non-parametric approach, it frees researchers from making directional or distributional shape assumptions. While alternative estimators require these rigid assumptions to correct for upward bias, political science data often fail to meet them in practice. Through four sets of Monte Carlo simulations, this paper demonstrates the utility of this framework. The proposed approach also applies more generally to empirical comparisons of two probability distributions defined on a common metric space, provided that the ground distance between support points is substantively meaningful.

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