On The Reproducibility Limitations of RAG Systems

Baiqiang Wang, Dongfang Zhao, Nathan R Tallent, Luanzheng Guo

Published: 2025/9/23

Abstract

Retrieval-Augmented Generation (RAG) is increasingly employed in generative AI-driven scientific workflows to integrate rapidly evolving scientific knowledge bases, yet its reliability is frequently compromised by non-determinism in their retrieval components. This paper introduces ReproRAG, a comprehensive benchmarking framework designed to systematically measure and quantify the reproducibility of vector-based retrieval systems. ReproRAG investigates sources of uncertainty across the entire pipeline, including different embedding models, precision, retrieval algorithms, hardware configurations, and distributed execution environments. Utilizing a suite of metrics, such as Exact Match Rate, Jaccard Similarity, and Kendall's Tau, the proposed framework effectively characterizes the trade-offs between reproducibility and performance. Our large-scale empirical study reveals critical insights; for instance, we observe that different embedding models have remarkable impact on RAG reproducibility. The open-sourced ReproRAG framework provides researchers and engineers productive tools to validate deployments, benchmark reproducibility, and make informed design decisions, thereby fostering more trustworthy AI for science.

On The Reproducibility Limitations of RAG Systems | SummarXiv | SummarXiv