Probing the Prefill: Detecting Code Vulnerabilities via Latent Activations

LLM-based coding assistants are seeing rapid adoption, offering substantial gains in developer productivity. As organizations increasingly ship code these agents produce, the security of that code becomes critical. Prior work has shown that minor prompt perturbations degrade the functional correctness of LLM-generated code, but whether they also compromise code security has remained unstudied. We apply token-level mutations to prompts across three models and five programming languages, and show that mutations as small as a single-character change can flip generated code from secure to vulnerable. Probing the models' hidden states reveals that this fragility is partially encoded in prompt representations, but unevenly so. Input-handling vulnerabilities, where the model omits validation or sanitization, are more predictable (mean AUC 0.753) than secure-defaults vulnerabilities, where insecure code stems from one local choice such as a weak algorithm or unsafe parameter (mean AUC 0.674). These results show that the threat model for LLM-assisted coding extends beyond prompt injection to ordinary prompt variation, and indicate that input-handling flaws can be caught before generation while secure-defaults flaws require intervention during decoding.

Researchers and practitioners increasingly apply Large Language Models (LLMs) for automated vulnerability detection. Recent work has shown that LLMs are susceptible to the same cognitive heuristics that bias human judgment. Yet, no work has investigated whether these heuristics affect a model's assessment of code vulnerabilities. In this paper, we present the first systematic exploration of cognitive heuristics in LLM-driven code vulnerability detection. We introduce a controlled framework that holds the code fixed and only varies the surrounding context to trigger three cognitive heuristics: the halo effect through author attribution, the framing effect through task objectives and consequences, and the anchoring effect through prior analysis results. Within this framework, we evaluate eight LLMs across three programming languages. Our results demonstrate that all evaluated models are susceptible to these heuristics. Cross-model average susceptibility is highest for framing at 33.2%, followed by anchoring at 23.5% and halo at 18.4%. Vulnerabilities that require semantic reasoning for detection are more susceptible to cognitive heuristics than those identifiable through pattern matching. Furthermore, models often change their verdict from safe to vulnerable based on the cognitive condition, without accurately identifying the actual vulnerability. To highlight the practical impact, we demonstrate a proof-of-concept black-box cognitive attack that can suppress up to 97% of previously detected vulnerabilities. Together, these findings show that cognitive bias is a consistent and exploitable property of LLM-based vulnerability detection.

Code generation large language models (LLMs) are increasingly integrated into modern software development workflows. Recent work has shown that these models are vulnerable to backdoor and poisoning attacks that induce the generation of insecure code, yet effective defenses remain limited. Existing scanning approaches rely on token-level generation consistency to invert attack targets, which is ineffective for source code where identical semantics can appear in diverse syntactic forms. We present CodeScan, the first black-box, vulnerability-specific scanning framework for auditing code generation LLMs, assuming that the defender specifies the target vulnerability classes and provides corresponding task-relevant prompts. CodeScan identifies attack targets by analyzing structural similarities across multiple generations conditioned on different clean prompts. It combines iterative divergence analysis with abstract syntax tree (AST)-based normalization to abstract away surface-level variation and unify semantically equivalent code, isolating structures that recur consistently across generations. CodeScan then applies LLM-based vulnerability analysis to determine whether the extracted structures contain security vulnerabilities and flags the model as compromised when such a structure is found. We evaluate CodeScan against four representative attacks under both backdoor and poisoning settings across three real-world vulnerability classes. Experiments on 117 models spanning three architectures and multiple model sizes demonstrate 97%+ detection accuracy with substantially lower false positives than prior methods.