# Rethinking Deep Alignment Through The Lens Of Incomplete Learning

arXiv: https://arxiv.org/abs/2511.12155 · HTML: https://mlsanity.com/paper/2511.12155/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Placed in Reasoning for agents, planning and code, one of 17 directions in LLM reasoning.
- Builds on 35 of its 49 references that are in the map.
- First posted on arXiv 15 Nov 2025.

## Placed in

- LLM reasoning / [Reasoning for agents, planning and code](https://mlsanity.com/lr/reasoning-for-agents-planning-and-code/)
- LLM alignment / RLHF / preference optimisation / [Safety alignment and jailbreak attacks](https://mlsanity.com/alignment/safety-alignment-and-jailbreak-attacks/)
- LLM safety and security / [Safety alignment, refusal and guardrails](https://mlsanity.com/safety/safety-alignment-refusal-and-guardrails/)

## Builds on (most cited first, 30 of 35)

- [Llama 2: Open Foundation and Fine-Tuned Chat Models](https://mlsanity.com/paper/2307.09288/) (2023)
- [Qwen3 Technical Report](https://mlsanity.com/paper/2505.09388/) (2025)
- [Towards Deep Learning Models Resistant to Adversarial Attacks](https://mlsanity.com/paper/1706.06083/) (2017)
- [Finetuned Language Models Are Zero-Shot Learners](https://mlsanity.com/paper/2109.01652/) (2021)
- [Training a Helpful and Harmless Assistant with Reinforcement Learning from Human Feedback](https://mlsanity.com/paper/2204.05862/) (2022)
- [Qwen Technical Report](https://mlsanity.com/paper/2309.16609/) (2023)
- [Universal and Transferable Adversarial Attacks on Aligned Language Models](https://mlsanity.com/paper/2307.15043/) (2023)
- [Constitutional AI: Harmlessness from AI Feedback](https://mlsanity.com/paper/2212.08073/) (2022)
- [Scaling Instruction-Finetuned Language Models](https://mlsanity.com/paper/2210.11416/) (2022)
- [Jailbreaking Black Box Large Language Models in Twenty Queries](https://mlsanity.com/paper/2310.08419/) (2023)
- [Representation Engineering: A Top-Down Approach to AI Transparency](https://mlsanity.com/paper/2310.01405/) (2023)
- [Inference-Time Intervention: Eliciting Truthful Answers from a Language Model](https://mlsanity.com/paper/2306.03341/) (2023)
- [Fine-tuning Aligned Language Models Compromises Safety, Even When Users Do Not Intend To!](https://mlsanity.com/paper/2310.03693/) (2023)
- [A General Theoretical Paradigm to Understand Learning from Human Preferences](https://mlsanity.com/paper/2310.12036/) (2023)
- [AutoDAN: Generating Stealthy Jailbreak Prompts on Aligned Large Language Models](https://mlsanity.com/paper/2310.04451/) (2023)
- [Discovering Latent Knowledge in Language Models Without Supervision](https://mlsanity.com/paper/2212.03827/) (2022)
- [Baseline Defenses for Adversarial Attacks Against Aligned Language Models](https://mlsanity.com/paper/2309.00614/) (2023)
- [The WMDP Benchmark: Measuring and Reducing Malicious Use With Unlearning](https://mlsanity.com/paper/2403.03218/) (2024)
- [Jailbreaking Leading Safety-Aligned LLMs with Simple Adaptive Attacks](https://mlsanity.com/paper/2404.02151/) (2024)
- [Safety Alignment Should Be Made More Than Just a Few Tokens Deep](https://mlsanity.com/paper/2406.05946/) (2024)
- [Shadow Alignment: The Ease of Subverting Safely-Aligned Language Models](https://mlsanity.com/paper/2310.02949/) (2023)
- [Certifying LLM Safety against Adversarial Prompting](https://mlsanity.com/paper/2309.02705/) (2023)
- [KTO: Model Alignment as Prospect Theoretic Optimization](https://mlsanity.com/paper/2402.01306/) (2024)
- [The Unlocking Spell on Base LLMs: Rethinking Alignment via In-Context Learning](https://mlsanity.com/paper/2312.01552/) (2023)
- [SORRY-Bench: Systematically Evaluating Large Language Model Safety Refusal](https://mlsanity.com/paper/2406.14598/) (2024)
- [Assessing the Brittleness of Safety Alignment via Pruning and Low-Rank Modifications](https://mlsanity.com/paper/2402.05162/) (2024)
- [RAIN: Your Language Models Can Align Themselves without Finetuning](https://mlsanity.com/paper/2309.07124/) (2023)
- [Safe LoRA: the Silver Lining of Reducing Safety Risks when Fine-tuning Large Language Models](https://mlsanity.com/paper/2405.16833/) (2024)
- [Vaccine: Perturbation-aware Alignment for Large Language Models against Harmful Fine-tuning Attack](https://mlsanity.com/paper/2402.01109/) (2024)
- [Booster: Tackling Harmful Fine-tuning for Large Language Models via Attenuating Harmful Perturbation](https://mlsanity.com/paper/2409.01586/) (2024)

## Abstract (arXiv)

Large language models exhibit systematic vulnerabilities to adversarial attacks despite extensive safety alignment. We provide a mechanistic analysis revealing that position-dependent gradient weakening during autoregressive training creates signal decay, leading to incomplete safety learning where safety training fails to transform model preferences in later response regions fully. We introduce base-favored tokens -- vocabulary elements where base models assign higher probability than aligned models -- as computational indicators of incomplete safety learning and develop a targeted completion method that addresses undertrained regions through adaptive penalties and hybrid teacher distillation. Experimental evaluation across Llama and Qwen model families demonstrates dramatic improvements in adversarial robustness, with 48--98% reductions in attack success rates while preserving general capabilities. These results establish both a mechanistic understanding and practical solutions for fundamental limitations in safety alignment methodologies.