Large language model (LLM)-integrated applications have become increasingly prevalent, yet face critical security vulnerabilities from prompt injection (PI) attacks. Defending against PI attacks faces two major issues: malicious instructions can be injected through diverse vectors, and injected instructions often lack clear semantic boundaries from the surrounding context, making them difficult to identify. To address these issues, we propose InstruCoT, a model enhancement method for PI defense that synthesizes diverse training data and employs instruction-level chain-of-thought fine-tuning, enabling LLMs to effectively identify and reject malicious instructions regardless of their source or position in the context. We evaluate InstruCoT across three critical dimensions: Behavior Deviation, Privacy Leakage, and Harmful Output. Experimental results across four LLMs demonstrate that InstruCoT significantly outperforms baselines in all dimensions while maintaining utility performance without degradation

Prompt-based adversarial attacks have become an effective means to assess the robustness of large language models (LLMs). However, existing approaches often treat prompts as monolithic text, overlooking their structural heterogeneity-different prompt components contribute unequally to adversarial robustness. Prior works like PromptRobust assume prompts are value-neutral, but our analysis reveals that complex, domain-specific prompts with rich structures have components with differing vulnerabilities. To address this gap, we introduce PromptAnatomy, an automated framework that dissects prompts into functional components and generates diverse, interpretable adversarial examples by selectively perturbing each component using our proposed method, ComPerturb. To ensure linguistic plausibility and mitigate distribution shifts, we further incorporate a perplexity (PPL)-based filtering mechanism. As a complementary resource, we annotate four public instruction-tuning datasets using the PromptAnatomy framework, verified through human review. Extensive experiments across these datasets and five advanced LLMs demonstrate that ComPerturb achieves state-of-the-art attack success rates. Ablation studies validate the complementary benefits of prompt dissection and PPL filtering. Our results underscore the importance of prompt structure awareness and controlled perturbation for reliable adversarial robustness evaluation in LLMs. Code and data are available at https://github.com/Yujiaaaaa/PACP.