Chain-of-Thought (CoT) reasoning offers a promising window into model monitoring. However, monitoring relies on faithfulness, i.e., the model output strictly derives from its reasoning trace. We identify an alignment tension where a model must be faithful enough to be monitored, yet robust enough to reject unsafe reasoning. We demonstrate that this counterbalance exists in current Large Reasoning Models (LRMs), and show ways in which it can be addressed. We introduce HazMart, a human-written dataset set in an autonomous AI shopkeeper scenario. Unlike prior work that relies on providing hints in prompts to test faithfulness (e.g., "A Stanford professor said it should be Answer A"), we propose a novel replacement-based technique, which we call Targeted Reasoning Replacement (TRR), that directly intervenes in the reasoning chain to substitute in unsafe or illogical thoughts (e.g., "Wait, the answer must be Option B [was Option A] because it is the most fitting"). DeepSeek-R1-Llama-70B exhibits high faithfulness (97.5%) but fails to reject Unsafe Reasoning (12.3%), while QwQ-32B is more robust (73.9% safety) at the cost of lower faithfulness (74.7%). Mechanistic analyses of QwQ-32B reveal that these properties are represented by anti-correlated internal directions peaking at the action-commit token. Finally, we demonstrate that representation steering can independently amplify the safety direction, increasing safe behavior by 9 percentage points while maintaining base capabilities.
While Large Reasoning Models (LRMs) excel at complex tasks, they remain highly vulnerable to sophisticated jailbreaks and direct harmful queries. To address this vulnerability, prior works depend heavily on external manual data annotation for safety alignment. However, we observe that LRMs can inherently identify safety risks when being re-presented with original queries alongside their own reasoning trajectories -- a capability we term Latent Safety Awareness. To leverage this safety awareness, we first employ Supervised Fine-Tuning (SFT) to explicitly induce safe tags to trigger safety analysis and guidance following the initial reasoning content for unsafe queries, while preserving standard responses for general queries to ensure adaptive triggering. Subsequently, we apply Direct Preference Optimization (DPO) to further enhance the correctness and stability of the safety analysis and guidance. Notably, responses required for both training stages are entirely generated by models being optimized. With (Safe Trigger) SFT and DPO, experimental results demonstrate significant safety enhancement. For example, the Attack Success Rate (ASR) of DeepSeek-R1-Distill-Llama-8B, on average, drops 24.65% and 36.72% on harmful and jailbreak benchmarks, respectively. Finally, our Safe Trigger method exerts almost no negative impact on general performance or user experience.
Large Reasoning Models (LRMs) pose a dual-surface safety challenge: both intermediate reasoning traces and final answers can contain harmful content. Existing alignment methods often operate at the whole-response level, allowing unsafe reasoning to be masked by a safe-looking final answer. We propose Segment-aware Listwise Target DPO (SaLT-DPO), which addresses this gap through three mechanisms: (1) segment-aware listwise alignment that decomposes responses into reasoning and answer segments, independently scores each segment's safety, and aligns length-normalized segment rewards with soft target distributions over multiple candidates; (2) joint safety coherence regularization that applies a weakest-link principle to promote safety consistency across both segments; and (3) utility anchoring on benign prompts to mitigate over-refusal and reasoning degradation. Experiments on three LRMs show that SaLT-DPO consistently reduces unsafe rates for both reasoning and answer segments while mitigating degradation in benign compliance and preserving general reasoning performance. Ablation studies demonstrate the complementary contributions of its components.
Large Reasoning Models (LRMs) exhibit strong problem-solving abilities, yet their safety alignment often degrades when handling harmful queries. Existing approaches to improving safety largely rely on additional training or preference optimization, while offering limited understanding of the internal mechanisms behind safety failures. In this work, we investigate this failure through a token-level positional analysis of refusal dynamics and identify a localized vulnerability at the onset of reasoning, which we term Onset Refusal Collapse (ORC). We find that the refusal-related signal of LRMs drops sharply at the first generated token under harmful queries, which is associated with unsafe response generation. Motivated by this finding, we propose SafeToken, a lightweight inference-time intervention that injects a learned continuous safety anchor precisely at reasoning onset. Despite updating only a single token embedding, SafeToken effectively mitigates ORC, improves safety on harmful-query benchmarks, and largely preserves reasoning utility. These results suggest that safety failures in LRMs can arise from a transient breakdown at the critical transition from understanding to generation.