Reasoning-enhanced large language models (LLMs) explicitly generate intermediate reasoning steps prior to generating final answers, helping the model excel in complex problem-solving. In this paper, we demonstrate that this emerging generation framework offers a unique opportunity for more fine-grained control over model behavior. We propose Thinking Intervention, a novel paradigm designed to explicitly guide the internal reasoning processes of LLMs by strategically inserting or revising specific thinking tokens. We conduct comprehensive evaluations across multiple tasks, including instruction following on IFEval, instruction hierarchy on SEP, and safety alignment on XSTest and SORRY-Bench. Our results demonstrate that Thinking Intervention significantly outperforms baseline prompting approaches, achieving up to 6.7% accuracy gains in instruction-following scenarios, 15.4% improvements in reasoning about instruction hierarchies, and a 40.0% increase in refusal rates for unsafe prompts using open-source DeepSeek R1 models. Overall, our work opens a promising new research avenue for controlling reasoning LLMs.
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