diff --git a/packages/scanner-core/src/plugin-registry.test.ts b/packages/scanner-core/src/plugin-registry.test.ts
index 1d564cc..ae32cc4 100644
--- a/packages/scanner-core/src/plugin-registry.test.ts
+++ b/packages/scanner-core/src/plugin-registry.test.ts
@@ -84,4 +84,73 @@ describe('PluginRegistry', () => {
     const allMeta = registry.getAllMetadata();
     expect(allMeta).toHaveLength(2);
   });
+
+  describe('Plugin Configuration', () => {
+    it('should register a plugin with optional configuration and retrieve it', () => {
+      const plugin = createMockPlugin('configurable');
+      registry.register(plugin, {
+        enabled: true,
+        severityOverride: FindingSeverity.CRITICAL,
+        thresholds: { maxGas: 50000 },
+      });
+
+      const config = registry.getPluginConfig('configurable');
+      expect(config).toBeDefined();
+      expect(config?.enabled).toBe(true);
+      expect(config?.severityOverride).toBe(FindingSeverity.CRITICAL);
+      expect(config?.thresholds).toEqual({ maxGas: 50000 });
+    });
+
+    it('should return undefined when no configuration was set', () => {
+      const plugin = createMockPlugin('unconfigured');
+      registry.register(plugin);
+      expect(registry.getPluginConfig('unconfigured')).toBeUndefined();
+    });
+
+    it('should allow updating plugin config with setPluginConfig', () => {
+      const plugin = createMockPlugin('updateable');
+      registry.register(plugin);
+      expect(registry.getPluginConfig('updateable')).toBeUndefined();
+
+      registry.setPluginConfig('updateable', { enabled: false });
+      expect(registry.getPluginConfig('updateable')?.enabled).toBe(false);
+    });
+
+    it('should clean up config when plugin is unregistered', () => {
+      const plugin = createMockPlugin('to-remove');
+      registry.register(plugin, { enabled: true });
+      expect(registry.getPluginConfig('to-remove')).toBeDefined();
+
+      registry.unregister('to-remove');
+      expect(registry.getPluginConfig('to-remove')).toBeUndefined();
+    });
+
+    it('should validate config against schema when schema is defined', () => {
+      const pluginWithSchema: IRulePlugin = {
+        ...createMockPlugin('schema-plugin'),
+        metadata: {
+          ...createMockPlugin('schema-plugin').metadata,
+          configSchema: {
+            maxDepth: { type: 'number', required: true },
+            allowFallback: { type: 'boolean' },
+          },
+        },
+      };
+
+      // Valid config
+      expect(() => {
+        registry.register(pluginWithSchema, { maxDepth: 5, allowFallback: true });
+      }).not.toThrow();
+
+      // Missing required property
+      expect(() => {
+        registry.register(pluginWithSchema, { allowFallback: true });
+      }).toThrow(/missing required property 'maxDepth'/);
+
+      // Wrong type
+      expect(() => {
+        registry.register(pluginWithSchema, { maxDepth: 'not-a-number' as unknown as number });
+      }).toThrow(/expected type 'number', got 'string'/);
+    });
+  });
 });
diff --git a/packages/scanner-core/src/plugin-registry.ts b/packages/scanner-core/src/plugin-registry.ts
index 710b1bd..378b35c 100644
--- a/packages/scanner-core/src/plugin-registry.ts
+++ b/packages/scanner-core/src/plugin-registry.ts
@@ -1,13 +1,25 @@
 import { logger } from '@veridion/logger';
-import type { AnalysisContext, IRulePlugin, PluginMetadata } from '@veridion/scanner-types';
+import type {
+  AnalysisContext,
+  IRulePlugin,
+  PluginConfig,
+  PluginMetadata,
+} from '@veridion/scanner-types';
 
 export class PluginRegistry {
   private plugins = new Map<string, IRulePlugin>();
+  private configs = new Map<string, PluginConfig>();
 
-  register(plugin: IRulePlugin): void {
+  register(plugin: IRulePlugin, config?: PluginConfig): void {
     if (this.plugins.has(plugin.metadata.id)) {
       logger.warn({ pluginId: plugin.metadata.id }, 'Plugin already registered, overwriting');
     }
+
+    if (config) {
+      this.validateConfig(plugin, config);
+      this.configs.set(plugin.metadata.id, config);
+    }
+
     this.plugins.set(plugin.metadata.id, plugin);
     logger.info(
       { pluginId: plugin.metadata.id, version: plugin.metadata.version },
@@ -15,6 +27,40 @@ export class PluginRegistry {
     );
   }
 
+  getPluginConfig(pluginId: string): PluginConfig | undefined {
+    return this.configs.get(pluginId);
+  }
+
+  setPluginConfig(pluginId: string, config: PluginConfig): void {
+    const plugin = this.plugins.get(pluginId);
+    if (plugin) {
+      this.validateConfig(plugin, config);
+    }
+    this.configs.set(pluginId, config);
+  }
+
+  private validateConfig(plugin: IRulePlugin, config: PluginConfig): void {
+    const schema = plugin.metadata.configSchema;
+    if (!schema) return;
+
+    for (const [key, propSchema] of Object.entries(schema)) {
+      const val = config[key];
+      if (propSchema.required && (val === undefined || val === null)) {
+        throw new Error(
+          `Configuration validation failed for plugin '${plugin.metadata.id}': missing required property '${key}'`,
+        );
+      }
+      if (val !== undefined && val !== null) {
+        const actualType = Array.isArray(val) ? 'array' : typeof val;
+        if (actualType !== propSchema.type) {
+          throw new Error(
+            `Configuration validation failed for plugin '${plugin.metadata.id}': property '${key}' expected type '${propSchema.type}', got '${actualType}'`,
+          );
+        }
+      }
+    }
+  }
+
   registerAll(plugins: IRulePlugin[]): void {
     for (const plugin of plugins) {
       this.register(plugin);
@@ -22,6 +68,7 @@ export class PluginRegistry {
   }
 
   unregister(pluginId: string): boolean {
+    this.configs.delete(pluginId);
     return this.plugins.delete(pluginId);
   }
 
diff --git a/packages/scanner-core/src/scanner.test.ts b/packages/scanner-core/src/scanner.test.ts
new file mode 100644
index 0000000..aad5d76
--- /dev/null
+++ b/packages/scanner-core/src/scanner.test.ts
@@ -0,0 +1,119 @@
+import type { AnalysisContext, FindingResult, IRulePlugin, PluginMetadata } from '@veridion/scanner-types';
+import { FindingSeverity } from '@veridion/shared';
+import { beforeEach, describe, expect, it } from 'vitest';
+
+import { PluginRegistry } from './plugin-registry';
+import { Scanner } from './scanner';
+
+function createMockFinding(pluginId: string, title: string, snippet: string): FindingResult {
+  return {
+    pluginId,
+    title,
+    description: 'Mock finding',
+    severity: FindingSeverity.MEDIUM,
+    filePath: 'Test.sol',
+    lineStart: 1,
+    lineEnd: 2,
+    codeSnippet: snippet,
+    recommendation: 'Fix it',
+    confidence: 0.8,
+    references: [],
+  };
+}
+
+function createMockPlugin(id: string, findings: FindingResult[]): IRulePlugin {
+  const metadata: PluginMetadata = {
+    id,
+    name: `Plugin ${id}`,
+    version: '1.0.0',
+    description: 'Mock',
+    severity: FindingSeverity.MEDIUM,
+    category: 'CUSTOM',
+    chains: ['ethereum'],
+    languages: ['solidity'],
+    tags: ['test'],
+  };
+
+  return {
+    metadata,
+    initialize: async () => {},
+    // eslint-disable-next-line @typescript-eslint/require-await
+    analyze: async () => findings,
+    getFixRecommendation: () => 'Fix',
+    supportsContext: () => true,
+  };
+}
+
+describe('Scanner with Plugin Configuration', () => {
+  let registry: PluginRegistry;
+  let context: AnalysisContext;
+
+  beforeEach(() => {
+    registry = new PluginRegistry();
+    context = {
+      contractName: 'Vault',
+      sourceCode: 'contract Vault {}',
+      chain: 'ethereum',
+      language: 'solidity',
+      compilerVersion: null,
+      metadata: {},
+    };
+  });
+
+  it('should run plugin without config by default', async () => {
+    const findings = [createMockFinding('test-plugin', 'Issue 1', 'call()')];
+    registry.register(createMockPlugin('test-plugin', findings));
+
+    const scanner = new Scanner(registry);
+    const result = await scanner.scan(context);
+
+    expect(result.findings).toHaveLength(1);
+    expect(result.findings[0]?.severity).toBe(FindingSeverity.MEDIUM);
+  });
+
+  it('should override severity of findings when severityOverride is configured', async () => {
+    const findings = [createMockFinding('test-plugin', 'Issue 1', 'call()')];
+    registry.register(createMockPlugin('test-plugin', findings), {
+      severityOverride: FindingSeverity.CRITICAL,
+    });
+
+    const scanner = new Scanner(registry);
+    const result = await scanner.scan(context);
+
+    expect(result.findings).toHaveLength(1);
+    expect(result.findings[0]?.severity).toBe(FindingSeverity.CRITICAL);
+    expect(result.summary.critical).toBe(1);
+    expect(result.summary.medium).toBe(0);
+  });
+
+  it('should filter out findings matching disabledPatterns', async () => {
+    const findings = [
+      createMockFinding('multi-pattern', 'Timestamp equality check', 'block.timestamp == target'),
+      createMockFinding('multi-pattern', 'Timestamp interval check', 'block.timestamp > deadline'),
+      createMockFinding('multi-pattern', 'Unrelated check', 'msg.sender == owner'),
+    ];
+
+    registry.register(createMockPlugin('multi-pattern', findings), {
+      disabledPatterns: ['interval', 'msg.sender'],
+    });
+
+    const scanner = new Scanner(registry);
+    const result = await scanner.scan(context);
+
+    expect(result.findings).toHaveLength(1);
+    expect(result.findings[0]?.title).toBe('Timestamp equality check');
+  });
+
+  it('should skip plugin when enabled is false in config', async () => {
+    const findings = [createMockFinding('disabled-plugin', 'Should not appear', 'xyz')];
+    registry.register(createMockPlugin('disabled-plugin', findings), {
+      enabled: false,
+    });
+
+    const scanner = new Scanner(registry);
+    const result = await scanner.scan(context);
+
+    expect(result.findings).toHaveLength(0);
+    expect(result.summary.total).toBe(0);
+  });
+});
diff --git a/packages/scanner-core/src/scanner.ts b/packages/scanner-core/src/scanner.ts
index bae40c8..024294a 100644
--- a/packages/scanner-core/src/scanner.ts
+++ b/packages/scanner-core/src/scanner.ts
@@ -1,6 +1,6 @@
 import { logger } from '@veridion/logger';
 import type { AnalysisContext, FindingResult, IRulePlugin } from '@veridion/scanner-types';
-import { AuditStatus } from '@veridion/shared';
+import { AuditStatus, type FindingSeverity } from '@veridion/shared';
 
 import type { PluginRegistry } from './plugin-registry';
 import { ResultAggregator } from './result-aggregator';
@@ -90,8 +90,35 @@ export class Scanner {
 
   private async runPlugin(plugin: IRulePlugin, context: AnalysisContext): Promise<FindingResult[]> {
     try {
+      const config = this.registry.getPluginConfig(plugin.metadata.id);
+      if (config?.enabled === false) {
+        logger.debug({ pluginId: plugin.metadata.id }, 'Plugin disabled by configuration, skipping');
+        return [];
+      }
+
       logger.debug({ pluginId: plugin.metadata.id }, 'Running plugin');
-      const findings = await plugin.analyze(context);
+      let findings = await plugin.analyze(context);
+
+      if (config) {
+        if (config.disabledPatterns && config.disabledPatterns.length > 0) {
+          findings = findings.filter((f) => {
+            const matchesPattern = config.disabledPatterns?.some(
+              (pattern) =>
+                f.title.toLowerCase().includes(pattern.toLowerCase()) ||
+                f.codeSnippet.toLowerCase().includes(pattern.toLowerCase()),
+            );
+            return !matchesPattern;
+          });
+        }
+
+        if (config.severityOverride) {
+          findings = findings.map((f) => ({
+            ...f,
+            severity: config.severityOverride as FindingSeverity,
+          }));
+        }
+      }
+
       logger.debug(
         { pluginId: plugin.metadata.id, findingCount: findings.length },
         'Plugin completed',
diff --git a/packages/scanner-types/src/index.ts b/packages/scanner-types/src/index.ts
index 5c15f23..8d3c9f8 100644
--- a/packages/scanner-types/src/index.ts
+++ b/packages/scanner-types/src/index.ts
@@ -16,6 +16,23 @@ export type PluginCategory =
   | 'UPGRADE'
   | 'CUSTOM';
 
+export interface ConfigPropertySchema {
+  type: 'string' | 'number' | 'boolean' | 'array' | 'object';
+  description?: string;
+  default?: unknown;
+  required?: boolean;
+}
+
+export type PluginConfigSchema = Record<string, ConfigPropertySchema>;
+
+export interface PluginConfig {
+  enabled?: boolean;
+  severityOverride?: FindingSeverity;
+  disabledPatterns?: string[];
+  thresholds?: Record<string, number>;
+  [key: string]: unknown;
+}
+
 export interface PluginMetadata {
   id: string;
   name: string;
@@ -28,6 +45,7 @@ export interface PluginMetadata {
   tags: string[];
   author?: string;
   references?: string[];
+  configSchema?: PluginConfigSchema;
 }
 
 export interface AnalysisContext {