Coding agents are increasingly used for software engineering tasks, including bootstrapping projects from third-party repositories whose integrity cannot be assumed. Prior work on repository poisoning largely focuses on attacker-controlled injection and disguise, but developers also shape risk through everyday invocation choices: what task to delegate, how to phrase the request, and which skills or rules to supply. We term these user-side choices Prompt-Level Configurations (PLCs) and introduce CIPR (Coding In Poisoned Repos), the first benchmark that systematically varies PLCs in poisoned real-world repositories. CIPR comprises 1,920 instances across 20 repositories, four task types, three social-media-grounded prompt styles, and three skill/rule conditions, and measures attack success rate (ASR) and agent alert rate (AR) using automated runtime and trace-based oracles. Our evaluation reveals two key insights: (1) Vulnerability is highly context-dependent, with task type creating up to a 4.5-fold difference in ASR, with test-execution task forming a silent attack surface (high ASR, low AR). (2) Prompt expression shifts risk indirectly: underspecified prompts reduce ASR by truncating execution depth; noisy prompts exhibit a directional trend toward suppressing alerts by making malicious content less conspicuous. These findings highlight that coding agent vulnerability is not a static property, but a dynamic outcome shaped by everyday user configurations.

Safety-aligned large language models (LLMs) are increasingly deployed in real-world pipelines, yet this deployment also enlarges the supply-chain attack surface: adversaries can distribute backdoored checkpoints that behave normally under standard evaluation but jailbreak when a hidden trigger is present. Recent post-hoc weight-editing methods offer an efficient approach to injecting such backdoors by directly modifying model weights to map a trigger to an attacker-specified response. However, existing methods typically optimize a token-level mapping that forces an affirmative prefix (e.g., “Sure”), which does not guarantee sustained harmful output—the model may begin with apparent agreement yet revert to safety-aligned refusal within a few decoding steps. We address this reliability gap by shifting the backdoor objective from surface tokens to internal representations. We extract a steering vector that captures the difference between compliant and refusal behaviors, and compile it into a persistent weight modification that activates only when the trigger is present. To preserve stealthiness and benign utility, we impose a null-space constraint so that the injected edit remains dormant on clean inputs. The method is efficient, requiring only a small set of examples and admitting a closed-form solution. Across multiple safety-aligned LLMs and jailbreak benchmarks, our method achieves high triggered attack success while maintaining non-triggered safety and general utility.

With the widespread adoption of open-source code language models (code LMs), intellectual property (IP) protection has become an increasingly critical concern. While current watermarking techniques have the potential to identify the code LM to protect its IP, they have limitations when facing the more practical and complex demand, i.e., offering the individual user-level tracing in the black-box setting. This work presents CLMTracing, a black-box code LM watermarking framework employing the rule-based watermarks and utility-preserving injection method for user-level model tracing. CLMTracing further incorporates a parameter selection algorithm sensitive to the robust watermark and adversarial training to enhance the robustness against watermark removal attacks. Comprehensive evaluations demonstrate CLMTracing is effective across multiple state-of-the-art (SOTA) code LMs, showing significant harmless improvements compared to existing SOTA baselines and strong robustness against various removal attacks.