Grounding LLM Reasoning under Incomplete Graph Evidence

When does an LLM controller outperform rule-based traversal for knowledge graph exploration? We study this question through RLM-on-KG, a retrieval system that treats an LLM as an autonomous navigator over an RDF-encoded mention graph for grounded question answering. Unlike GraphRAG pipelines that rely on offline LLM indexing, RLM-on-KG performs entity-first, multi-hop exploration at query time using deterministic graph construction and a fixed tool set. Our central finding is a conditional advantage: the value of LLM control depends on evidence scatter and tool-calling sophistication. The paper's core claim is LLM control versus heuristic traversal, not a generic win over GraphRAG. On GraphRAG-Bench Novel (519 questions), Gemini 2.0 Flash achieves +2.47 pp F1 over a rule-based heuristic baseline (p < 0.0001), but only +0.16 pp over a GraphRAG-local variant (not significant). With a stronger controller, Claude Haiku 4.5, the gain over heuristic grows to +4.37 pp (p < 0.001) and extends to a +2.42 pp significant improvement over GraphRAG-local (p < 0.001). The gain is largest when gold evidence is scattered across 6-10 chunks (+3.21 pp) and smallest for concentrated evidence (+1.85 pp). Cross-scale validation on MuSiQue confirms that the LLM-over-heuristic advantage transfers, with expected attenuation on smaller per-question graphs. The core architectural insight is the separation of candidate discovery from ranking: the LLM adds value through exploration breadth, while final evidence selection is best handled by pure vector re-ranking. Beyond retrieval, exploration traces provide a proposed stress-test harness for structured data quality, yielding diagnostics for coverage, connectivity, provenance, and queryability.

Large language models (LLMs) have demonstrated remarkable capabilities in natural language processing. However, LLMs often suffer from hallucinations and lack of relevant knowledge when dealing with question answering (QA) tasks. To mitigate these issues, knowledge graphs (KGs) have been utilized to enhance LLM reasoning. Nevertheless, KGs often contain noise and errors, while existing KG-enhanced LLM approaches are generally unable to identify and filter such noisy and erroneous content, which can instead amplify hallucinations and pose challenges for reliable reasoning. Uncertain knowledge graphs (UKGs), which associate each triple with a confidence score to quantify uncertainty, offer a promising direction to address this challenge. Compared with prior work, we investigate how to leverage UKGs to support LLMs for QA. We propose Debate-on-Graph (DoG), a new framework that enables LLMs and UKGs to collaborate adaptively for reliable reasoning. Specifically, we first design a heuristic search algorithm tailored for UKGs to extract reliable and question-relevant subgraphs, thereby reducing noise and errors in retrieved knowledge. We then introduce a Multi-Agent Debate mechanism, which yields reliable answers through adaptive adversarial debates, aiming to fully exploit the knowledge in UKGs while preserving the reliability of retrieved evidence. Extensive experiments on four benchmark QA datasets show that DoG achieves state-of-the-art performance over existing LLM reasoning methods and KG-based baselines, while enabling reliable and adaptive reasoning. Our code is available at https://github.com/seucoin/Debate-on-Graph.

GraphRAG conditions language models on subgraphs retrieved from knowledge graphs, encoded via message-passing GNNs. Because these encoders entangle node contributions through iterated neighborhood aggregation, there is no closed-form way to determine how much each retrieved entity influenced the encoder's output, and therefore no way to faithfully audit what structural evidence actually reached the model. We introduce Ex-GraphRAG, which replaces the GNN encoder with a Multivariate Graph Neural Additive Network (M-GNAN), an extension of additive graph models to high-dimensional embedding spaces that yields an exact decomposition of the encoder's output across individual nodes and feature groups, without post-hoc approximation. On STaRK-Prime, this auditable encoder matches black-box performance. Using it to audit evidence routing, we uncover a semantic-structural mismatch: the nodes that dominate the encoder's output are structurally disconnected in the retrieved subgraph, held together by low-attribution intermediaries whose removal degrades multi-hop QA by up to 28%. This mismatch, invisible to any opaque encoder, reveals that semantic importance and structural connectivity are governed by disjoint sets of nodes, with direct implications for retrieval pruning, context construction, and failure diagnosis in graph-augmented LLMs.