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Large Language Models (LLMs) have significantly advanced the fact-checking studies. However, existing automated fact-checking evaluation methods rely on static datasets and classification metrics, which fail to automatically evaluate the justification production and uncover the nuanced limitations of LLMs in fact-checking. In this work, we introduce FACT-AUDIT, an agent-driven framework that adaptively and dynamically assesses LLMs’ fact-checking capabilities. Leveraging importance sampling principles and multi-agent collaboration, FACT-AUDIT generates adaptive and scalable datasets, performs iterative model-centric evaluations, and updates assessments based on model-specific responses. By incorporating justification production alongside verdict prediction, this framework provides a comprehensive and evolving audit of LLMs’ factual reasoning capabilities, to investigate their trustworthiness. Extensive experiments demonstrate that FACT-AUDIT effectively differentiates among state-of-the-art LLMs, providing valuable insights into model strengths and limitations in model-centric fact-checking analysis.