Why Models Know But Don't Say: Chain-of-Thought Faithfulness Divergence Between Thinking Tokens and Answers in Open-Weight Reasoning Models

Extended-thinking models expose a second text-generation channel ("thinking tokens") alongside the user-visible answer. This study examines 12 open-weight reasoning models on MMLU and GPQA questions paired with misleading hints. Among the 10,506 cases where models actually followed the hint (choosing the hint's target over the ground truth), each case is classified by whether the model acknowledges the hint in its thinking tokens, its answer text, both, or neither. In 55.4% of these cases the model's thinking tokens contain hint-related keywords that the visible answer omits entirely, a pattern termed *thinking-answer divergence*. The reverse (answer-only acknowledgment) is near-zero (0.5%), confirming that the asymmetry is directional. Hint type shapes the pattern sharply: sycophancy is the most *transparent* hint, with 58.8% of sycophancy-influenced cases acknowledging the professor's authority in both channels, while consistency (72.2%) and unethical (62.7%) hints are dominated by thinking-only acknowledgment. Models also vary widely, from near-total divergence (Step-3.5-Flash: 94.7%) to relative transparency (Qwen3.5-27B: 19.6%). These results show that answer-text-only monitoring misses more than half of all hint-influenced reasoning and that thinking-token access, while necessary, still leaves 11.8% of cases with no verbalized acknowledgment in either channel.

Lie to Me: How Faithful Is Chain-of-Thought Reasoning in Reasoning Models?

Chain-of-thought (CoT) reasoning has been proposed as a transparency mechanism for large language models in safety-critical deployments, yet its effectiveness depends on faithfulness (whether models accurately verbalize the factors that actually influence their outputs), a property that prior evaluations have examined in only two proprietary models, finding acknowledgment rates as low as 25% for Claude 3.7 Sonnet and 39% for DeepSeek-R1. To extend this evaluation across the open-weight ecosystem, this study tests 12 open-weight reasoning models spanning 9 architectural families (7B-685B parameters) on 498 multiple-choice questions from MMLU and GPQA Diamond, injecting six categories of reasoning hints (sycophancy, consistency, visual pattern, metadata, grader hacking, and unethical information) and measuring the rate at which models acknowledge hint influence in their CoT when hints successfully alter answers. Across 41,832 inference runs, overall faithfulness rates range from 39.7% (Seed-1.6-Flash) to 89.9% (DeepSeek-V3.2-Speciale) across model families, with consistency hints (35.5%) and sycophancy hints (53.9%) exhibiting the lowest acknowledgment rates. Training methodology and model family predict faithfulness more strongly than parameter count, and keyword-based analysis reveals a striking gap between thinking-token acknowledgment (approximately 87.5%) and answer-text acknowledgment (approximately 28.6%), suggesting that models internally recognize hint influence but systematically suppress this acknowledgment in their outputs. These findings carry direct implications for the viability of CoT monitoring as a safety mechanism and suggest that faithfulness is not a fixed property of reasoning models but varies systematically with architecture, training method, and the nature of the influencing cue.

Measuring Faithfulness Depends on How You Measure: Classifier Sensitivity in LLM Chain-of-Thought Evaluation

Recent work on chain-of-thought (CoT) faithfulness reports single aggregate numbers (e.g., DeepSeek-R1 acknowledges hints 39% of the time), implying that faithfulness is an objective, measurable property of a model. This paper demonstrates that it is not. Three classifiers (a regex-only detector, a two-stage regex-plus-LLM pipeline, and an independent Claude Sonnet 4 judge) are applied to 10,276 influenced reasoning traces from 12 open-weight models spanning 9 families and 7B to 1T parameters. On identical data, these classifiers produce overall faithfulness rates of 74.4%, 82.6%, and 69.7%, respectively, with non-overlapping 95% confidence intervals. Per-model gaps range from 2.6 to 30.6 percentage points; all are statistically significant (McNemar's test, p < 0.001). The disagreements are systematic, not random: inter-classifier agreement measured by Cohen's kappa ranges from 0.06 ("slight") for sycophancy hints to 0.42 ("moderate") for grader hints, and the asymmetry is pronounced: for sycophancy, 883 cases are classified as faithful by the pipeline but unfaithful by the Sonnet judge, while only 2 go the other direction. Classifier choice can also reverse model rankings: Qwen3.5-27B ranks 1st under the pipeline but 7th under the Sonnet judge; OLMo-3.1-32B moves in the opposite direction, from 9th to 3rd. The root cause is that different classifiers operationalize related faithfulness constructs at different levels of stringency (lexical mention versus epistemic dependence), and these constructs yield divergent measurements on the same behavior. These results demonstrate that published faithfulness numbers cannot be meaningfully compared across studies that use different classifiers, and that future evaluations should report sensitivity ranges across multiple classification methodologies rather than single point estimates.

Comparative Analysis of LLM Abliteration Methods: A Cross-Architecture Evaluation

Safety alignment mechanisms in large language models prevent responses to harmful queries through learned refusal behavior, yet these same mechanisms impede legitimate research applications including cognitive modeling, adversarial testing, and security analysis. While abliteration techniques enable surgical removal of refusal representations through directional orthogonalization, the relative effectiveness of available implementations remains uncharacterized. This study evaluates four abliteration tools (Heretic, DECCP, ErisForge, FailSpy) across sixteen instruction-tuned models (7B-14B parameters), reporting tool compatibility on all 16 models and quantitative metrics on subsets dictated by tool support. Single-pass methods demonstrated superior capability preservation on the benchmarked subset (avg GSM8K change across three models: ErisForge -0.28 pp; DECCP -0.13 pp), while Bayesian-optimized abliteration produced variable distribution shift (KL divergence: 0.043-1.646) with model-dependent capability impact. These findings provide researchers with evidence-based selection criteria for abliteration tool deployment across diverse model architectures. The principal finding indicates that mathematical reasoning capabilities exhibit the highest sensitivity to abliteration interventions, with GSM8K change ranging from +1.51 pp to -18.81 pp (-26.5% relative) depending on tool selection and model architecture.

CardioEmbed: Domain-Specialized Text Embeddings for Clinical Cardiology

Biomedical text embeddings have primarily been developed using research literature from PubMed, yet clinical cardiology practice relies heavily on procedural knowledge and specialized terminology found in comprehensive textbooks rather than research abstracts. This research practice gap limits the effectiveness of existing embedding models for clinical applications incardiology. This study trained CardioEmbed, a domain-specialized embedding model based on Qwen3-Embedding-8B, using contrastive learning on a curated corpus of seven comprehensive cardiology textbooks totaling approximately 150,000 sentences after deduplication. The model employs InfoNCE loss with in-batch negatives and achieves 99.60% retrieval accuracy on cardiac-specific semantic retrieval tasks, a +15.94 percentage point improvement over MedTE, the current state-of-the-art medical embedding model. On MTEB medical benchmarks, the model obtained BIOSSES 0.77 Spearman and SciFact 0.61 NDCG@10, indicating competitive performance on related biomedical domains. Domain-specialized training on comprehensive clinical textbooks yields near-perfect cardiology retrieval (99.60% Acc@1), improving over MedTE by +15.94 percentage points.