diff --git a/.changeset/cli-report-parser-cleye.md b/.changeset/cli-report-parser-cleye.md
new file mode 100644
index 0000000000..f805aeb5d4
--- /dev/null
+++ b/.changeset/cli-report-parser-cleye.md
@@ -0,0 +1,5 @@
+---
+'@backstage/repo-tools': patch
+---
+
+Updated CLI report parser to support cleye-style help output sections (`USAGE:` and `FLAGS:`).
diff --git a/packages/cli/cli-report.md b/packages/cli/cli-report.md
index ee4b03cbca..591b32ead7 100644
--- a/packages/cli/cli-report.md
+++ b/packages/cli/cli-report.md
@@ -57,81 +57,75 @@ Commands:
 ### `backstage-cli config docs`
 
 ```
-Usage: backstage-cli config docs [options]
+Usage: backstage-cli config docs
 
 Options:
-  --package <name>
+  --package <string>
   -h, --help
 ```
 
 ### `backstage-cli config schema`
 
 ```
-Usage: <none>
+Usage: backstage-cli config schema
 
 Options:
-  --format
-  --help
+  --format <string>
   --merge
-  --no-merge
-  --package
-  --version
+  --package <string>
+  -h, --help
 ```
 
 ### `backstage-cli config:check`
 
 ```
-Usage: <none>
+Usage: backstage-cli config:check
 
 Options:
-  --config
+  --config <string>
   --deprecated
   --frontend
-  --help
   --lax
-  --package
+  --package <string>
   --strict
-  --version
+  -h, --help
 ```
 
 ### `backstage-cli config:docs`
 
 ```
-Usage: program [options]
+Usage: backstage-cli config:docs
 
 Options:
-  --package <name>
+  --package <string>
   -h, --help
 ```
 
 ### `backstage-cli config:print`
 
 ```
-Usage: <none>
+Usage: backstage-cli config:print
 
 Options:
-  --config
-  --format
+  --config <string>
+  --format <string>
   --frontend
-  --help
   --lax
-  --package
-  --version
+  --package <string>
   --with-secrets
+  -h, --help
 ```
 
 ### `backstage-cli config:schema`
 
 ```
-Usage: <none>
+Usage: backstage-cli config:schema
 
 Options:
-  --format
-  --help
+  --format <string>
   --merge
-  --no-merge
-  --package
-  --version
+  --package <string>
+  -h, --help
 ```
 
 ### `backstage-cli create-github-app`
@@ -146,13 +140,12 @@ Options:
 ### `backstage-cli info`
 
 ```
-Usage: <none>
+Usage: backstage-cli info
 
 Options:
-  --format
-  --help
-  --include
-  --version
+  --format <string>
+  --include <string>
+  -h, --help
 ```
 
 ### `backstage-cli migrate`
@@ -175,7 +168,7 @@ Commands:
 ### `backstage-cli migrate package-exports`
 
 ```
-Usage: program [options]
+Usage: backstage-cli migrate package-exports
 
 Options:
   -h, --help
@@ -184,7 +177,7 @@ Options:
 ### `backstage-cli migrate package-lint-configs`
 
 ```
-Usage: program [options]
+Usage: backstage-cli migrate package-lint-configs
 
 Options:
   -h, --help
@@ -193,7 +186,7 @@ Options:
 ### `backstage-cli migrate package-roles`
 
 ```
-Usage: program [options]
+Usage: backstage-cli migrate package-roles
 
 Options:
   -h, --help
@@ -202,7 +195,7 @@ Options:
 ### `backstage-cli migrate package-scripts`
 
 ```
-Usage: program [options]
+Usage: backstage-cli migrate package-scripts
 
 Options:
   -h, --help
@@ -211,7 +204,7 @@ Options:
 ### `backstage-cli migrate react-router-deps`
 
 ```
-Usage: program [options]
+Usage: backstage-cli migrate react-router-deps
 
 Options:
   -h, --help
@@ -271,7 +264,7 @@ Options:
 ### `backstage-cli package clean`
 
 ```
-Usage: program [options]
+Usage: backstage-cli package clean
 
 Options:
   -h, --help
@@ -293,7 +286,7 @@ Options:
 ### `backstage-cli package postpack`
 
 ```
-Usage: program [options]
+Usage: backstage-cli package postpack
 
 Options:
   -h, --help
@@ -302,7 +295,7 @@ Options:
 ### `backstage-cli package prepack`
 
 ```
-Usage: program [options]
+Usage: backstage-cli package prepack
 
 Options:
   -h, --help
@@ -472,7 +465,7 @@ Options:
 ### `backstage-cli repo clean`
 
 ```
-Usage: program [options]
+Usage: backstage-cli repo clean
 
 Options:
   -h, --help
@@ -560,25 +553,23 @@ Commands:
 ### `backstage-cli translations export`
 
 ```
-Usage: <none>
+Usage: backstage-cli translations export
 
 Options:
-  --help
-  --output
-  --pattern
-  --version
+  --output <string>
+  --pattern <string>
+  -h, --help
 ```
 
 ### `backstage-cli translations import`
 
 ```
-Usage: <none>
+Usage: backstage-cli translations import
 
 Options:
-  --help
-  --input
-  --output
-  --version
+  --input <string>
+  --output <string>
+  -h, --help
 ```
 
 ### `backstage-cli versions:bump`
diff --git a/packages/cli/src/modules/build/commands/package/clean.ts b/packages/cli/src/modules/build/commands/package/clean.ts
index 70d7ea3771..f222c23666 100644
--- a/packages/cli/src/modules/build/commands/package/clean.ts
+++ b/packages/cli/src/modules/build/commands/package/clean.ts
@@ -14,11 +14,14 @@
  * limitations under the License.
  */
 
+import { cli } from 'cleye';
 import fs from 'fs-extra';
 import { targetPaths } from '@backstage/cli-common';
+import type { CommandContext } from '../../../../wiring/types';
 
-export default async function clean() {
+export default async ({ args, info }: CommandContext) => {
+  cli({ help: info }, undefined, args);
   await fs.remove(targetPaths.resolve('dist'));
   await fs.remove(targetPaths.resolve('dist-types'));
   await fs.remove(targetPaths.resolve('coverage'));
-}
+};
diff --git a/packages/cli/src/modules/build/commands/repo/clean.ts b/packages/cli/src/modules/build/commands/repo/clean.ts
index a3c6e9cbbd..efafdae510 100644
--- a/packages/cli/src/modules/build/commands/repo/clean.ts
+++ b/packages/cli/src/modules/build/commands/repo/clean.ts
@@ -14,13 +14,15 @@
  * limitations under the License.
  */
 
+import { cli } from 'cleye';
 import fs from 'fs-extra';
 import { resolve as resolvePath } from 'node:path';
 import { PackageGraph } from '@backstage/cli-node';
-
 import { run, targetPaths } from '@backstage/cli-common';
+import type { CommandContext } from '../../../../wiring/types';
 
-export default async function command(): Promise<void> {
+export default async ({ args, info }: CommandContext) => {
+  cli({ help: info }, undefined, args);
   const packages = await PackageGraph.listTargetPackages();
 
   await fs.remove(targetPaths.resolveRoot('dist'));
@@ -48,4 +50,4 @@ export default async function command(): Promise<void> {
       }
     }),
   );
-}
+};
diff --git a/packages/cli/src/modules/build/index.ts b/packages/cli/src/modules/build/index.ts
index 7a116f5d8a..fd94cb5db6 100644
--- a/packages/cli/src/modules/build/index.ts
+++ b/packages/cli/src/modules/build/index.ts
@@ -14,6 +14,7 @@
  * limitations under the License.
  */
 
+import { cli } from 'cleye';
 import { Command, Option } from 'commander';
 import { createCliPlugin } from '../../wiring/factory';
 import { lazy } from '../../wiring/lazy';
@@ -214,7 +215,8 @@ export const buildPlugin = createCliPlugin({
     reg.addCommand({
       path: ['package', 'prepack'],
       description: 'Prepares a package for packaging before publishing',
-      execute: async () => {
+      execute: async ({ args, info }) => {
+        cli({ help: info }, undefined, args);
         const { pre } = await import('./commands/package/pack');
         await pre();
       },
@@ -223,7 +225,8 @@ export const buildPlugin = createCliPlugin({
     reg.addCommand({
       path: ['package', 'postpack'],
       description: 'Restores the changes made by the prepack command',
-      execute: async () => {
+      execute: async ({ args, info }) => {
+        cli({ help: info }, undefined, args);
         const { post } = await import('./commands/package/pack');
         await post();
       },
diff --git a/packages/cli/src/modules/migrate/commands/packageExports.ts b/packages/cli/src/modules/migrate/commands/packageExports.ts
index 581c334c6f..3307e55721 100644
--- a/packages/cli/src/modules/migrate/commands/packageExports.ts
+++ b/packages/cli/src/modules/migrate/commands/packageExports.ts
@@ -14,8 +14,12 @@
  * limitations under the License.
  */
 
-export default async function command() {
+import { cli } from 'cleye';
+import type { CommandContext } from '../../../wiring/types';
+
+export default async ({ args, info }: CommandContext) => {
+  cli({ help: info }, undefined, args);
   throw new Error(
     'The `migrate package-exports` command has been removed, use `repo fix` instead.',
   );
-}
+};
diff --git a/packages/cli/src/modules/migrate/commands/packageLintConfigs.ts b/packages/cli/src/modules/migrate/commands/packageLintConfigs.ts
index 4df76a51ac..c6839fe28b 100644
--- a/packages/cli/src/modules/migrate/commands/packageLintConfigs.ts
+++ b/packages/cli/src/modules/migrate/commands/packageLintConfigs.ts
@@ -14,14 +14,17 @@
  * limitations under the License.
  */
 
+import { cli } from 'cleye';
 import fs from 'fs-extra';
 import { resolve as resolvePath } from 'node:path';
 import { PackageGraph } from '@backstage/cli-node';
 import { runOutput } from '@backstage/cli-common';
+import type { CommandContext } from '../../../wiring/types';
 
 const PREFIX = `module.exports = require('@backstage/cli/config/eslint-factory')`;
 
-export default async function command() {
+export default async ({ args, info }: CommandContext) => {
+  cli({ help: info }, undefined, args);
   const packages = await PackageGraph.listTargetPackages();
 
   const oldConfigs = [
@@ -86,4 +89,4 @@ export default async function command() {
   if (hasPrettier) {
     await runOutput(['prettier', '--write', ...configPaths]);
   }
-}
+};
diff --git a/packages/cli/src/modules/migrate/commands/packageRole.ts b/packages/cli/src/modules/migrate/commands/packageRole.ts
index 6b422c375e..8d8c04b735 100644
--- a/packages/cli/src/modules/migrate/commands/packageRole.ts
+++ b/packages/cli/src/modules/migrate/commands/packageRole.ts
@@ -14,13 +14,16 @@
  * limitations under the License.
  */
 
+import { cli } from 'cleye';
 import fs from 'fs-extra';
 import { resolve as resolvePath } from 'node:path';
 import { getPackages } from '@manypkg/get-packages';
 import { PackageRoles } from '@backstage/cli-node';
 import { targetPaths } from '@backstage/cli-common';
+import type { CommandContext } from '../../../wiring/types';
 
-export default async () => {
+export default async ({ args, info }: CommandContext) => {
+  cli({ help: info }, undefined, args);
   const { packages } = await getPackages(targetPaths.dir);
 
   await Promise.all(
diff --git a/packages/cli/src/modules/migrate/commands/packageScripts.ts b/packages/cli/src/modules/migrate/commands/packageScripts.ts
index f875bf14fc..e76c684a6f 100644
--- a/packages/cli/src/modules/migrate/commands/packageScripts.ts
+++ b/packages/cli/src/modules/migrate/commands/packageScripts.ts
@@ -14,15 +14,18 @@
  * limitations under the License.
  */
 
+import { cli } from 'cleye';
 import fs from 'fs-extra';
 import { resolve as resolvePath } from 'node:path';
 import { PackageGraph, PackageRoles, PackageRole } from '@backstage/cli-node';
+import type { CommandContext } from '../../../wiring/types';
 
 const configArgPattern = /--config[=\s][^\s$]+/;
 
 const noStartRoles: PackageRole[] = ['cli', 'common-library'];
 
-export default async function command() {
+export default async ({ args, info }: CommandContext) => {
+  cli({ help: info }, undefined, args);
   const packages = await PackageGraph.listTargetPackages();
 
   await Promise.all(
@@ -104,4 +107,4 @@ export default async function command() {
       }
     }),
   );
-}
+};
diff --git a/packages/cli/src/modules/migrate/commands/reactRouterDeps.ts b/packages/cli/src/modules/migrate/commands/reactRouterDeps.ts
index 3c2cf46560..702593c366 100644
--- a/packages/cli/src/modules/migrate/commands/reactRouterDeps.ts
+++ b/packages/cli/src/modules/migrate/commands/reactRouterDeps.ts
@@ -14,14 +14,17 @@
  * limitations under the License.
  */
 
+import { cli } from 'cleye';
 import fs from 'fs-extra';
 import { resolve as resolvePath } from 'node:path';
 import { PackageGraph, PackageRoles } from '@backstage/cli-node';
+import type { CommandContext } from '../../../wiring/types';
 
 const REACT_ROUTER_DEPS = ['react-router', 'react-router-dom'];
 const REACT_ROUTER_RANGE = '6.0.0-beta.0 || ^6.3.0';
 
-export default async function command() {
+export default async ({ args, info }: CommandContext) => {
+  cli({ help: info }, undefined, args);
   const packages = await PackageGraph.listTargetPackages();
 
   await Promise.all(
@@ -56,4 +59,4 @@ export default async function command() {
       }
     }),
   );
-}
+};
diff --git a/packages/eslint-plugin/package.json b/packages/eslint-plugin/package.json
index 2a85462335..89e08206ce 100644
--- a/packages/eslint-plugin/package.json
+++ b/packages/eslint-plugin/package.json
@@ -5,9 +5,6 @@
   "publishConfig": {
     "access": "public"
   },
-  "backstage": {
-    "role": "cli"
-  },
   "homepage": "https://backstage.io",
   "repository": {
     "type": "git",
diff --git a/packages/repo-tools/src/commands/api-reports/cli-reports/runCliExtraction.ts b/packages/repo-tools/src/commands/api-reports/cli-reports/runCliExtraction.ts
index 146c83bcfb..ae49c95f39 100644
--- a/packages/repo-tools/src/commands/api-reports/cli-reports/runCliExtraction.ts
+++ b/packages/repo-tools/src/commands/api-reports/cli-reports/runCliExtraction.ts
@@ -27,7 +27,14 @@ import { generateCliReport } from './generateCliReport';
 import { logApiReportInstructions } from '../common';
 
 function parseHelpPage(helpPageContent: string) {
-  const [, usage] = helpPageContent.match(/^\s*Usage: (.*)$/im) ?? [];
+  let usage: string | undefined;
+
+  // Commander format: "Usage: backstage-cli ..."
+  const commanderUsage = helpPageContent.match(/^\s*Usage: (.*)$/im);
+  if (commanderUsage) {
+    usage = commanderUsage[1];
+  }
+
   const lines = helpPageContent.split(/\r?\n/);
 
   let options = new Array<string>();
@@ -39,8 +46,8 @@ function parseHelpPage(helpPageContent: string) {
       lines.shift();
     }
     if (lines.length > 0) {
-      // Start of a new section, e.g. "Options:"
-      const sectionName = lines.shift();
+      // Start of a new section, e.g. "Options:" or "FLAGS:"
+      const sectionName = lines.shift()?.toLocaleLowerCase('en-US');
       // Take lines until we hit the next section or the end
       const sectionEndIndex = lines.findIndex(
         line => line && !line.match(/^\s/),
@@ -53,12 +60,18 @@ function parseHelpPage(helpPageContent: string) {
         .map(line => line.match(/^\s{1,8}(.*?)\s\s+/)?.[1])
         .filter(Boolean) as string[];
 
-      if (sectionName?.toLocaleLowerCase('en-US') === 'options:') {
+      if (sectionName === 'options:' || sectionName === 'flags:') {
         options = sectionItems;
-      } else if (sectionName?.toLocaleLowerCase('en-US') === 'commands:') {
+      } else if (sectionName === 'commands:') {
         commands = sectionItems;
-      } else if (sectionName?.toLocaleLowerCase('en-US') === 'arguments:') {
+      } else if (sectionName === 'arguments:') {
         commandArguments = sectionItems;
+      } else if (sectionName === 'usage:') {
+        // cleye format: usage line is inside the USAGE: section
+        const usageLine = sectionLines.find(l => l.trim().length > 0)?.trim();
+        if (usageLine) {
+          usage = usageLine;
+        }
       } else {
         throw new Error(`Unknown CLI section: ${sectionName}`);
       }