MCP-DPT: A Defense-Placement Taxonomy and Coverage Analysis for Model Context Protocol Security

The Model Context Protocol (MCP), introduced by Anthropic in November 2024 and now governed by the Linux Foundation's Agentic AI Foundation, has rapidly become the de facto standard for connecting large language model (LLM)-based agents to external tools and data sources, with over 97 million monthly SDK downloads and more than 177000 registered tools. However, this explosive adoption has exposed a critical gap: the absence of a unified, formal security framework capable of systematically characterizing, analyzing, and mitigating the diverse threats facing MCP-based agent ecosystems. Existing security research remains fragmented across individual attack papers, isolated benchmarks, and point defense mechanisms. This paper presents MCPSHIELD, a comprehensive formal security framework for MCP-based AI agents. We make four principal contributions: (1) a hierarchical threat taxonomy comprising 7 threat categories and 23 distinct attack vectors organized across four attack surfaces, grounded in the analysis of over 177000 MCP tools; (2) a formal verification model based on labeled transition systems with trust boundary annotations that enables static and runtime analysis of MCP tool interaction chains; (3) a systematic comparative evaluation of 12 existing defense mechanisms, identifying coverage gaps across our threat taxonomy; and (4) a defense in depth reference architecture integrating capability based access control, cryptographic tool attestation, information flow tracking, and runtime policy enforcement. Our analysis reveals that no existing single defense covers more than 34 percent of the identified threat landscape, whereas MCPSHIELD's integrated architecture achieves theoretical coverage of 91 percent. We further identify seven open research challenges that must be addressed to secure the next generation of agentic AI systems.

The Model Context Protocol (MCP) is a new and emerging technology that extends the functionality of large language models, improving workflows but also exposing users to a new attack surface. Several studies have highlighted related security flaws, but MCP attack detection remains underexplored. To address this research gap, this study develops and evaluates a range of supervised machine learning approaches, including both traditional and deep-learning models. We evaluated the systems on the detection of malicious MCP tool descriptions in two scenarios: (1) a binary classification task distinguishing malicious from benign tools, and (2) a multiclass classification task identifying the attack type while separating benign from malicious tools. In addition to the machine learning models, we compared a rule-based approach that serves as a baseline. The results indicate that several of the developed models achieved 100% F1-score on the binary classification task. In the multiclass scenario, the SVC and BERT models performed best, achieving F1 scores of 90.56% and 88.33%, respectively. Confusion matrices were also used to visualize the full distribution of predictions often missed by traditional metrics, providing additional insight for selecting the best-fitting solution in real-world scenarios. This study presents an addition to the MCP defence area, showing that machine learning models can perform exceptionally well in separating malicious and benign data points. To apply the solution in a live environment, a middleware was developed to classify which MCP tools are safe to use before execution, and block the ones that are not safe. Furthermore, the study shows that these models can outperform traditional rule-based solutions currently in use in the field.

The Model Context Protocol (MCP) introduces a structurally distinct attack surface that existing threat frameworks, designed for traditional software systems or generic LLM deployments, do not adequately cover. This paper presents MCP-38, a protocol-specific threat taxonomy consisting of 38 threat categories (MCP-01 through MCP-38). The taxonomy was derived through a systematic four-phase methodology: protocol decomposition, multi-framework cross-mapping, real-world incident synthesis, and remediation-surface categorization. Each category is mapped to STRIDE, OWASP Top 10 for LLM Applications (2025, LLM01--LLM10), and the OWASP Top 10 for Agentic Applications (2026, ASI01--ASI10). MCP-38 addresses critical threats arising from MCP's semantic attack surface (tool description poisoning, indirect prompt injection, parasitic tool chaining, and dynamic trust violations), none of which are adequately captured by prior work. MCP-38 provides the definitional and empirical foundation for automated threat intelligence platforms.