AI agents increasingly act rather than merely read: across the Model Context Protocol (MCP) ecosystem, the share of deployed tools that modify external state has risen from 27% to 65% of tool use. When agents exercise this authority on public blockchains through MCP, skills, and tool calling, the consequences of an attack are governed by the blockchain execution layer rather than by conventional software assumptions. This survey argues that four properties of that layer (irreversibility, signing authority, continuous autonomy, and sequence-level composition) qualitatively change the threat model, turning the recoverable failures of generic agent security into a standing, irreversible loss. We organize the fragmented MCP-security literature into an attack-surface taxonomy, then contribute a Web3 risk-mapping matrix that ties each attack class to its amplified impact, the responsible amplifiers, a representative mitigation, and the residual gap. We synthesize defenses, including emerging blockchain-based mechanisms, and find them improving but insufficient: measured protections stop fewer than 30% of attacks, and model-level safety refuses fewer than 3%. We close by positioning the work against adjacent surveys and deriving a research agenda from the matrix's open cells.
Figures & tables
Figure 1: Escalation of confirmed MCP/tool-calling security disclosures (Apr 2025–Apr 2026) against ecosystem growth. Circles: CVEs (height = CVSS). Triangles: documented incidents. Dashed line: share of action tools rising 27% → 65% as total tools grew 5,000 → 177,436.
Figure 2: MCP trust boundaries and the two untrusted-content entry points. Tool descriptions enter at planning and tool outputs at response handling. Both cross into the agent’s context as trusted input: “the trust boundary is the schema” (Sec. 2 ). The four surfaces of Table 1 map onto this dataflow.
Figure 3: The agent stack (top) and the signing-authority custody spectrum (bottom). MCP at the tool layer is where the attacks of Table 1 land. The custody spectrum, from raw keys to TEE-isolated keys, governs the blast radius of the signing-authority amplifier.
#
Attack class
Surface
Stage
Layer
Representative CVE / incident (verified)
1
Tool poisoning
server
task planning
P
CVE-2025-54136 MCPoison (CVSS 7.2); MCPTox 72.8% ASR
Table 1: Attack-Surface Taxonomy for Agent Tool-Use Against Web3. Axes adopted from MCPSecBench (surface) and MSB (stage) as organizing scaffolding. Each class carries a representative confirmed CVE or documented incident.
Table 3: MCP-Security Benchmarks and This Survey. Only independently verified benchmarks are listed. This work adds the Web3 execution-layer overlay absent from all prior benchmarks.
Agents using the Model Context Protocol (MCP) rely on semantic matching to select tools from third-party servers, exposing a semantic supply-chain risk through attacker-controlled metadata and outputs. We introduce A2M (Attraction-to-Manipulation), a two-stage black-box framework for hijacking MCP agents. The Attraction phase optimizes tool metadata to increase invocation probability; the Manipulation phase uses execution traces to refine adversarial tool returns that steer agents toward attacker-desired outcomes. On LiveMCPBench, direct attacks optimized and evaluated on GLM-4.6 achieve a macro-average malicious tool invocation rate of 93.6% across four scenarios, increase weighted token costs to 32.4× the benign baseline under Cognitive Denial of Service, and attain a mean attack success rate of 74.4% across Information Exfiltration, Environment Integrity Compromise, and Reasoning Derailment. Transfer to four other models without re-optimization yields corresponding macro-averages of 63.6%, 2.7×, and 24.5%. These findings motivate stronger tool vetting and runtime isolation in MCP ecosystems. Code is publicly available at https://github.com/Lilaizhen/A2M.
Laizhen Li, Xuan Wang, Peicheng Zhao +4
Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences · University of Chinese Academy of Sciences · Nanyang Technological University +3
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.
Nirajan Acharya, Gaurav Kumar Gupta
University of the Cumberlands · Youngstown State University
The emerging W3C WebMCP proposal enables LLM agents to invoke tools exposed by web pages. In multi-party web environments, however, integrating agent execution into a browser security model centered on the Same-Origin Policy (SOP) leaves insufficient provenance and lifecycle guarantees for agent-accessible tools, creating three risks: subject-attribution spoofing, uncontrolled tool lifecycles, and semantic prompt injection. We propose WebMCP-Phalanx, a dual-layer agent runtime architecture. Its first layer provides a browser-native trust anchor that binds each tool to its registering principal through cryptographically protected capability credentials and propagates provenance labels throughout the tool lifecycle. Its second layer separates semantic inspection from privileged tool use. A Quarantine Agent (Q-LLM), without tool invocation authority, inspects tool metadata, outputs, and page-supplied content for prompt injection. Validated content is then forwarded to a Privileged Agent (P-LLM) for execution, while the Q-LLM's internal state remains hidden from page scripts. Empirical evaluation shows that the browser-native ownership mechanism reduces revocation and overwrite attack success from 100% to 0%. The dual-agent runtime blocks all 80 prompt-injection attempts embedded in tool descriptions and limits tool-return attacks to 2 successful cases out of 80. Across experiments, task utility remains statistically indistinguishable from the no-attack baseline. Under a white-box adaptive attacker, however, description-based filtering can be bypassed through malicious tool names invoked before inspection. This finding motivates a call-timing gate that delays tool invocation until all agent-visible tool metadata has been validated.
Lin-Fa Lee, YI-YU Chang, Kuo-Hui Yeh
Department of Institute of Artificial Intelligence Innovation National Yang Ming Chiao Tung University Hsinchu, Taiwan