# Towards Understanding Pause Token Fine-Tuning Dynamics: A Mode Retention Perspective

arXiv: https://arxiv.org/abs/2609.04489 · HTML: https://mlsanity.com/paper/2609.04489/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Placed in Test-time compute and efficient thinking, one of 17 directions in LLM reasoning.
- Builds on 28 of its 36 references that are in the map.
- First posted on arXiv 3 Sep 2026.

## Placed in

- LLM reasoning / [Test-time compute and efficient thinking](https://mlsanity.com/lr/test-time-compute-and-efficient-thinking/)

## Builds on (most cited first, 28 of 28)

- [The Llama 3 Herd of Models](https://mlsanity.com/paper/2407.21783/) (2024)
- [Training Verifiers to Solve Math Word Problems](https://mlsanity.com/paper/2110.14168/) (2021)
- [DeepSeekMath: Pushing the Limits of Mathematical Reasoning in Open Language Models](https://mlsanity.com/paper/2402.03300/) (2024)
- [Qwen3 Technical Report](https://mlsanity.com/paper/2505.09388/) (2025)
- [Evaluating Large Language Models Trained on Code](https://mlsanity.com/paper/2107.03374/) (2021)
- [Measuring Mathematical Problem Solving With the MATH Dataset](https://mlsanity.com/paper/2103.03874/) (2021)
- [HellaSwag: Can a Machine Really Finish Your Sentence?](https://mlsanity.com/paper/1905.07830/) (2019)
- [Finetuned Language Models Are Zero-Shot Learners](https://mlsanity.com/paper/2109.01652/) (2021)
- [Program Synthesis with Large Language Models](https://mlsanity.com/paper/2108.07732/) (2021)
- [PIQA: Reasoning about Physical Commonsense in Natural Language](https://mlsanity.com/paper/1911.11641/) (2019)
- [GPQA: A Graduate-Level Google-Proof Q&A Benchmark](https://mlsanity.com/paper/2311.12022/) (2023)
- [Code Llama: Open Foundation Models for Code](https://mlsanity.com/paper/2308.12950/) (2023)
- [Challenging BIG-Bench Tasks and Whether Chain-of-Thought Can Solve Them](https://mlsanity.com/paper/2210.09261/) (2022)
- [Don't Stop Pretraining: Adapt Language Models to Domains and Tasks](https://mlsanity.com/paper/2004.10964/) (2020)
- [Solving Quantitative Reasoning Problems with Language Models](https://mlsanity.com/paper/2206.14858/) (2022)
- [Is Your Code Generated by ChatGPT Really Correct? Rigorous Evaluation of Large Language Models for Code Generation](https://mlsanity.com/paper/2305.01210/) (2023)
- [An Empirical Study of Catastrophic Forgetting in Large Language Models During Continual Fine-tuning](https://mlsanity.com/paper/2308.08747/) (2023)
- [SimpleRL-Zoo: Investigating and Taming Zero Reinforcement Learning for Open Base Models in the Wild](https://mlsanity.com/paper/2503.18892/) (2025)
- [DeepMath-103K: A Large-Scale, Challenging, Decontaminated, and Verifiable Mathematical Dataset for Advancing Reasoning](https://mlsanity.com/paper/2504.11456/) (2025)
- [Think before you speak: Training Language Models With Pause Tokens](https://mlsanity.com/paper/2310.02226/) (2023)
- [Let's Think Dot by Dot: Hidden Computation in Transformer Language Models](https://mlsanity.com/paper/2404.15758/) (2024)
- [Mitigating the Alignment Tax of RLHF](https://mlsanity.com/paper/2309.06256/) (2023)
- [Physics of Language Models: Part 2.1, Grade-School Math and the Hidden Reasoning Process](https://mlsanity.com/paper/2407.20311/) (2024)
- [Memory Transformer](https://mlsanity.com/paper/2006.11527/) (2020)
- [Spurious Forgetting in Continual Learning of Language Models](https://mlsanity.com/paper/2501.13453/) (2025)
- [Do language models plan ahead for future tokens?](https://mlsanity.com/paper/2404.00859/) (2024)
- [Learning to Insert [PAUSE] Tokens for Better Reasoning](https://mlsanity.com/paper/2506.03616/) (2025)
- [Think in Sentences: Explicit Sentence Boundaries Enhance Language Model's Capabilities](https://mlsanity.com/paper/2604.10135/) (2026)

## Abstract (arXiv)

Pause-token methods improve LLM reasoning by inserting special tokens into sequences. Prior work explains these gains through computational expressivity. However, there is relatively little investigation into the training dynamics of pause tokens. We explore how pause tokens reshape the training dynamics of fine-tuning. Two controlled pilots expose distinct asymmetries. On a synthetic continual-learning task, masked pauses overwrite a previously-learned distribution roughly 4x less at matched final adaptation (H1, mode retention); on a synthetic math-reasoning probe, the boundary-adjacent token comes to encode substantially more downstream-step information (H2, non-myopic compression). We formalize a training rule consistent with both - Masked Boundary Pause (MBP), pause tokens placed at reasoning-step boundaries with their loss masked. Across 1B-8B Qwen and Llama models, MBP consistently improves reasoning, achieving gains of up to 6 points on math and 2.5 points on code, while preserving general language understanding abilities. We further demonstrate that this mode-preserving strategy extend gains to GRPO. These results recast pause tokens as a training-dynamics intervention on the retention-adaptation trade-off, rather than merely an inference-time computation device.