diff --git a/bin/manyplug.js b/bin/manyplug.js
index 494aeed..ad3a172 100755
--- a/bin/manyplug.js
+++ b/bin/manyplug.js
@@ -6,6 +6,9 @@ import { initCommand } from '../src/commands/init.js';
 import { installCommand } from '../src/commands/install.js';
 import { listCommand } from '../src/commands/list.js';
 import { validateCommand } from '../src/commands/validate.js';
+import { syncCommand } from '../src/commands/sync.js';
+import { updateCommand } from '../src/commands/update.js';
+import { removeCommand } from '../src/commands/remove.js';
 
 const require = createRequire(import.meta.url);
 const pkg = require('../package.json');
@@ -28,6 +31,14 @@ program
   .option('-g, --global', 'Install to global registry')
   .action(installCommand);
 
+program
+  .command('remove <plugin>')
+  .alias('rm')
+  .description('Remove an installed plugin')
+  .option('-y, --yes', 'Skip confirmation prompt')
+  .option('--remove-deps', 'Also remove npm dependencies')
+  .action(removeCommand);
+
 program
   .command('list')
   .alias('ls')
@@ -35,6 +46,17 @@ program
   .option('-a, --all', 'Include disabled plugins')
   .action(listCommand);
 
+program
+  .command('sync')
+  .description('Sync registry.json with installed plugins')
+  .action(syncCommand);
+
+program
+  .command('update [plugin]')
+  .description('Update plugins to match registry versions')
+  .option('-a, --all', 'Update all plugins (default if no name given)')
+  .action(updateCommand);
+
 program
   .command('validate [path]')
   .description('Validate manyplug.json syntax')
diff --git a/src/commands/remove.js b/src/commands/remove.js
new file mode 100644
index 0000000..4237c8e
--- /dev/null
+++ b/src/commands/remove.js
@@ -0,0 +1,100 @@
+import fs from 'fs-extra';
+import path from 'path';
+import chalk from 'chalk';
+import { execSync } from 'child_process';
+
+const PLUGINS_DIR = path.resolve('src/plugins');
+const REGISTRY_PATH = path.resolve('registry.json');
+
+/**
+ * Remove an installed plugin
+ * @param {string} pluginName - plugin name to remove
+ * @param {object} options - command options
+ */
+export async function removeCommand(pluginName, options) {
+  if (!pluginName) {
+    console.error(chalk.red('❌ Please specify a plugin name'));
+    console.log(chalk.gray('   Usage: manyplug remove <plugin-name>'));
+    process.exit(1);
+  }
+
+  const pluginDir = path.join(PLUGINS_DIR, pluginName);
+  const manifestPath = path.join(pluginDir, 'manyplug.json');
+
+  // Check if plugin exists
+  if (!await fs.pathExists(manifestPath)) {
+    console.error(chalk.red(`❌ Plugin "${pluginName}" is not installed`));
+    process.exit(1);
+  }
+
+  // Read manifest to get info before removing
+  let manifest;
+  try {
+    manifest = await fs.readJson(manifestPath);
+  } catch (err) {
+    manifest = { name: pluginName, version: '?' };
+  }
+
+  // Confirm removal unless --yes flag
+  if (!options.yes) {
+    console.log(chalk.yellow(`⚠️  You are about to remove:`));
+    console.log(chalk.white(`   ${manifest.name} v${manifest.version}`));
+    if (manifest.description) {
+      console.log(chalk.gray(`   ${manifest.description}`));
+    }
+    console.log(chalk.yellow('\nThis action cannot be undone.\n'));
+    console.log(chalk.gray('Use --yes to skip this confirmation'));
+    process.exit(1);
+  }
+
+  console.log(chalk.blue(`Removing "${pluginName}"...`));
+
+  // Track dependencies to possibly remove
+  const deps = manifest.dependencies || {};
+  const hasDeps = Object.keys(deps).length > 0;
+
+  try {
+    // Remove plugin directory
+    await fs.remove(pluginDir);
+    console.log(chalk.green(`✅ Removed "${pluginName}"`));
+
+    // Update registry if exists
+    if (await fs.pathExists(REGISTRY_PATH)) {
+      try {
+        const registry = await fs.readJson(REGISTRY_PATH);
+        if (registry.plugins && registry.plugins[pluginName]) {
+          delete registry.plugins[pluginName];
+          registry.lastUpdated = new Date().toISOString();
+          await fs.writeJson(REGISTRY_PATH, registry, { spaces: 2 });
+          console.log(chalk.gray('   Updated registry'));
+        }
+      } catch (err) {
+        // Ignore registry update errors
+      }
+    }
+
+    // Warning about orphaned dependencies
+    if (hasDeps && !options.removeDeps) {
+      console.log(chalk.yellow('\n⚠️  Plugin had npm dependencies:'));
+      for (const [dep, version] of Object.entries(deps)) {
+        console.log(chalk.gray(`   - ${dep}@${version}`));
+      }
+      console.log(chalk.gray('Run with --remove-deps to also uninstall these'));
+    }
+
+    // Remove npm dependencies if requested
+    if (hasDeps && options.removeDeps) {
+      console.log(chalk.blue('\nRemoving npm dependencies...'));
+      const depList = Object.keys(deps).join(' ');
+      try {
+        execSync(`npm uninstall ${depList}`, { cwd: process.cwd(), stdio: 'pipe' });
+        console.log(chalk.green('✅ Dependencies removed'));
+      } catch (err) {
+        console.warn(chalk.yellow(`⚠️  Could not remove dependencies: ${err.message}`));
+      }
+    }
+  } catch (err) {
+    console.error(chalk.red(`❌ Failed to remove plugin: ${err.message}`));
+    process.exit(1);
+  }
+}
diff --git a/src/commands/sync.js b/src/commands/sync.js
new file mode 100644
index 0000000..bfc19f2
--- /dev/null
+++ b/src/commands/sync.js
@@ -0,0 +1,75 @@
+import fs from 'fs-extra';
+import path from 'path';
+import chalk from 'chalk';
+
+const PLUGINS_DIR = path.resolve('src/plugins');
+const REGISTRY_PATH = path.resolve('registry.json');
+
+/**
+ * Sync registry.json with installed plugins.
+ * Scans all plugins in src/plugins/ and updates registry.json
+ */
+export async function syncCommand() {
+  console.log(chalk.blue('Syncing registry...'));
+
+  // Load existing registry or create new one
+  let registry = { lastUpdated: new Date().toISOString(), plugins: {} };
+
+  if (await fs.pathExists(REGISTRY_PATH)) {
+    try {
+      registry = await fs.readJson(REGISTRY_PATH);
+    } catch (err) {
+      console.warn(chalk.yellow('⚠️  Could not read existing registry, creating new one'));
+    }
+  }
+
+  // Scan plugins directory
+  if (!await fs.pathExists(PLUGINS_DIR)) {
+    console.warn(chalk.yellow('⚠️  No plugins directory found'));
+    await fs.writeJson(REGISTRY_PATH, registry, { spaces: 2 });
+    console.log(chalk.green(`✅ Registry updated at ${path.relative(process.cwd(), REGISTRY_PATH)}`));
+    return;
+  }
+
+  const entries = await fs.readdir(PLUGINS_DIR, { withFileTypes: true });
+  let updated = 0;
+  let added = 0;
+
+  for (const entry of entries) {
+    if (!entry.isDirectory()) continue;
+
+    const manifestPath = path.join(PLUGINS_DIR, entry.name, 'manyplug.json');
+    if (!await fs.pathExists(manifestPath)) continue;
+
+    try {
+      const manifest = await fs.readJson(manifestPath);
+      const pluginName = manifest.name || entry.name;
+
+      // Check if plugin exists in registry and version changed
+      const existing = registry.plugins[pluginName];
+      if (!existing) {
+        added++;
+      } else if (existing.version !== manifest.version) {
+        updated++;
+      }
+
+      registry.plugins[pluginName] = {
+        ...manifest,
+        _syncedAt: new Date().toISOString(),
+        _sourcePath: path.join('src/plugins', entry.name)
+      };
+    } catch (err) {
+      console.warn(chalk.yellow(`⚠️  Failed to read ${entry.name}: ${err.message}`));
+    }
+  }
+
+  // Update timestamp
+  registry.lastUpdated = new Date().toISOString();
+
+  await fs.writeJson(REGISTRY_PATH, registry, { spaces: 2 });
+
+  console.log(chalk.green(`✅ Registry synced`));
+  console.log(chalk.gray(`   Added: ${added}`));
+  console.log(chalk.gray(`   Updated: ${updated}`));
+  console.log(chalk.gray(`   Total plugins: ${Object.keys(registry.plugins).length}`));
+}
diff --git a/src/commands/update.js b/src/commands/update.js
new file mode 100644
index 0000000..93cdfd9
--- /dev/null
+++ b/src/commands/update.js
@@ -0,0 +1,158 @@
+import fs from 'fs-extra';
+import path from 'path';
+import chalk from 'chalk';
+import { execSync } from 'child_process';
+
+const PLUGINS_DIR = path.resolve('src/plugins');
+const REGISTRY_PATH = path.resolve('registry.json');
+
+/**
+ * Check and update plugins to match registry versions
+ * @param {string} pluginName - specific plugin to update, or undefined for all
+ * @param {object} options - command options
+ */
+export async function updateCommand(pluginName, options) {
+  // Check if registry exists
+  if (!await fs.pathExists(REGISTRY_PATH)) {
+    console.error(chalk.red('❌ registry.json not found. Run "manyplug sync" first.'));
+    process.exit(1);
+  }
+
+  const registry = await fs.readJson(REGISTRY_PATH);
+
+  if (pluginName) {
+    // Update specific plugin
+    await updatePlugin(pluginName, registry.plugins[pluginName]);
+  } else {
+    // Update all plugins
+    const plugins = Object.keys(registry.plugins);
+    if (plugins.length === 0) {
+      console.log(chalk.gray('No plugins in registry'));
+      return;
+    }
+
+    console.log(chalk.blue(`Checking ${plugins.length} plugin(s)...\n`));
+
+    let updated = 0;
+    let upToDate = 0;
+    let notInstalled = 0;
+    let errors = 0;
+
+    for (const name of plugins) {
+      const result = await updatePlugin(name, registry.plugins[name], { silent: true });
+      if (result === 'updated') updated++;
+      else if (result === 'upToDate') upToDate++;
+      else if (result === 'notInstalled') notInstalled++;
+      else errors++;
+    }
+
+    console.log(chalk.bold('\nUpdate Summary:'));
+    console.log(chalk.green(`  Updated: ${updated}`));
+    console.log(chalk.gray(`  Up to date: ${upToDate}`));
+    if (notInstalled > 0) console.log(chalk.yellow(`  Not installed: ${notInstalled}`));
+    if (errors > 0) console.log(chalk.red(`  Errors: ${errors}`));
+  }
+}
+
+async function updatePlugin(name, registryEntry, { silent = false } = {}) {
+  if (!registryEntry) {
+    if (!silent) console.error(chalk.red(`❌ "${name}" not found in registry`));
+    return 'error';
+  }
+
+  const pluginDir = path.join(PLUGINS_DIR, name);
+  const manifestPath = path.join(pluginDir, 'manyplug.json');
+
+  // Check if plugin is installed
+  if (!await fs.pathExists(manifestPath)) {
+    // Plugin exists in registry but not installed - try to install it
+    if (registryEntry._sourcePath) {
+      if (!silent) console.log(chalk.blue(`Installing "${name}" from registry...`));
+      await installFromSource(name, registryEntry);
+      return 'updated';
+    }
+    if (!silent) console.log(chalk.yellow(`⚠️  "${name}" not installed (run "manyplug install ${name}")`));
+    return 'notInstalled';
+  }
+
+  // Read installed manifest
+  const installed = await fs.readJson(manifestPath);
+
+  // Compare versions
+  if (installed.version === registryEntry.version) {
+    if (!silent) console.log(chalk.gray(`  ${name}: ${installed.version} (up to date)`));
+    return 'upToDate';
+  }
+
+  // Version differs - update
+  if (!silent) console.log(chalk.blue(`Updating "${name}"...`));
+  console.log(chalk.gray(`  ${installed.version} → ${registryEntry.version}`));
+
+  // If we have a source path in registry, re-copy from there
+  if (registryEntry._sourcePath && await fs.pathExists(registryEntry._sourcePath)) {
+    // Backup current
+    const backupDir = `${pluginDir}.backup-${Date.now()}`;
+    await fs.copy(pluginDir, backupDir);
+
+    try {
+      // Remove old version
+      await fs.remove(pluginDir);
+
+      // Copy new version
+      await fs.copy(registryEntry._sourcePath, pluginDir);
+
+      // Install dependencies
+      if (registryEntry.dependencies && Object.keys(registryEntry.dependencies).length > 0) {
+        await installNpmDeps(registryEntry.dependencies);
+      }
+
+      if (!silent) console.log(chalk.green(`  ✅ Updated to ${registryEntry.version}`));
+      return 'updated';
+    } catch (err) {
+      // Restore backup on error
+      console.error(chalk.red(`  ❌ Update failed: ${err.message}`));
+      console.log(chalk.yellow('  Restoring backup...'));
+      await fs.copy(backupDir, pluginDir);
+      await fs.remove(backupDir);
+      return 'error';
+    }
+  }
+
+  // No source path - just update the version in manifest (metadata update)
+  await fs.writeJson(manifestPath, { ...installed, version: registryEntry.version }, { spaces: 2 });
+  if (!silent) console.log(chalk.yellow(`  ⚠️  Updated version only (no source available)`));
+  return 'updated';
+}
+
+async function installFromSource(name, registryEntry) {
+  const sourcePath = registryEntry._sourcePath;
+  const targetDir = path.join(PLUGINS_DIR, name);
+
+  if (!await fs.pathExists(sourcePath)) {
+    console.error(chalk.red(`  ❌ Source not found: ${sourcePath}`));
+    return;
+  }
+
+  await fs.ensureDir(PLUGINS_DIR);
+  await fs.copy(sourcePath, targetDir);
+
+  if (registryEntry.dependencies && Object.keys(registryEntry.dependencies).length > 0) {
+    await installNpmDeps(registryEntry.dependencies);
+  }
+
+  console.log(chalk.green(`  ✅ Installed "${name}" v${registryEntry.version}`));
+}
+
+async function installNpmDeps(dependencies) {
+  const deps = Object.entries(dependencies)
+    .map(([name, version]) => `${name}@${version === '*' ? 'latest' : version}`)
+    .join(' ');
+
+  if (!deps) return;
+
+  try {
+    execSync(`npm install ${deps}`, { cwd: process.cwd(), stdio: 'pipe' });
+  } catch (err) {
+    console.warn(chalk.yellow(`  ⚠️  Failed to install dependencies: ${err.message}`));
+  }
+}