Life sciences · Preprint
arXiv · September 30, 2026
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Foundation models are increasingly adopted across a wide range of applications, often serving as core blocks within AI systems. Yet different foundation models may encode the same input from multiple different views, leading to substantial representation disagreement, which we term Rashomon Representation. Such disagreement often signals inputs that a given model encodes in a way inconsistent with other models, offering a valuable yet underexplored signal for input reliability estimation. While prior work has largely focused on measuring disagreement across multiple models with a representation set, we instead focus on predicting disagreement from a single representation. We hypothesize that this disagreement follows some consistent, input-dependent patterns rather than occurring at random. To test this, we quantify disagreement by comparing each sample's nearest neighbors across different models' representation spaces, then train a lightweight predictor that estimates disagreement from a single model's representation. At inference time, given a new input, the predictor uses that input's representation to tell whether it aligns with or diverges from those of other models. Extensive experiments across diverse foundation models and datasets show that representational disagreement is indeed input-dependent, predictable, and generalizable, enabling efficient reliability estimation of foundation models.