diff --git a/.github/workflows/__quality-queries.yml b/.github/workflows/__quality-queries.yml
new file mode 100644
index 000000000..3a59b7ce2
--- /dev/null
+++ b/.github/workflows/__quality-queries.yml
@@ -0,0 +1,100 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+# to regenerate this file.
+
+name: PR Check - Quality queries input
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch: {}
+jobs:
+  quality-queries:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+          - os: windows-latest
+            version: nightly-latest
+    name: Quality queries input
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@v4
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: javascript
+          quality-queries: code-quality
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/analyze
+        with:
+          output: ${{ runner.temp }}/results
+          upload-database: false
+      - name: Upload SARIF
+        uses: actions/upload-artifact@v4
+        with:
+          name: config-export-${{ matrix.os }}-${{ matrix.version }}.sarif.json
+          path: ${{ runner.temp }}/results/javascript.sarif
+          retention-days: 7
+      - name: Check config properties appear in SARIF
+        uses: actions/github-script@v7
+        env:
+          SARIF_PATH: ${{ runner.temp }}/results/javascript.sarif
+        with:
+          script: |
+            const fs = require('fs');
+
+            const sarif = JSON.parse(fs.readFileSync(process.env['SARIF_PATH'], 'utf8'));
+            const run = sarif.runs[0];
+            const configSummary = run.properties.codeqlConfigSummary;
+
+            if (configSummary === undefined) {
+              core.setFailed('`codeqlConfigSummary` property not found in the SARIF run property bag.');
+            }
+            if (configSummary.disableDefaultQueries !== false) {
+              core.setFailed('`disableDefaultQueries` property incorrect: expected false, got ' +
+                `${JSON.stringify(configSummary.disableDefaultQueries)}.`);
+            }
+            const expectedQueries = [{ type: 'builtinSuite', uses: 'code-quality' }];
+            // Use JSON.stringify to deep-equal the arrays.
+            if (JSON.stringify(configSummary.queries) !== JSON.stringify(expectedQueries)) {
+              core.setFailed(`\`queries\` property incorrect: expected ${JSON.stringify(expectedQueries)}, got ` +
+                `${JSON.stringify(configSummary.queries)}.`);
+            }
+            core.info('Finished config export tests.');
+    env:
+      CODEQL_ACTION_TEST_MODE: true
diff --git a/pr-checks/checks/quality-queries.yml b/pr-checks/checks/quality-queries.yml
new file mode 100644
index 000000000..6bf61aa33
--- /dev/null
+++ b/pr-checks/checks/quality-queries.yml
@@ -0,0 +1,45 @@
+name: "Quality queries input"
+description: "Tests that queries specified in the quality-queries input are used."
+versions: ["linked", "nightly-latest"]
+steps:
+  - uses: ./../action/init
+    with:
+      languages: javascript
+      quality-queries: code-quality
+      tools: ${{ steps.prepare-test.outputs.tools-url }}
+  - uses: ./../action/analyze
+    with:
+      output: "${{ runner.temp }}/results"
+      upload-database: false
+  - name: Upload SARIF
+    uses: actions/upload-artifact@v4
+    with:
+      name: config-export-${{ matrix.os }}-${{ matrix.version }}.sarif.json
+      path: "${{ runner.temp }}/results/javascript.sarif"
+      retention-days: 7
+  - name: Check config properties appear in SARIF
+    uses: actions/github-script@v7
+    env:
+      SARIF_PATH: "${{ runner.temp }}/results/javascript.sarif"
+    with:
+      script: |
+        const fs = require('fs');
+
+        const sarif = JSON.parse(fs.readFileSync(process.env['SARIF_PATH'], 'utf8'));
+        const run = sarif.runs[0];
+        const configSummary = run.properties.codeqlConfigSummary;
+
+        if (configSummary === undefined) {
+          core.setFailed('`codeqlConfigSummary` property not found in the SARIF run property bag.');
+        }
+        if (configSummary.disableDefaultQueries !== false) {
+          core.setFailed('`disableDefaultQueries` property incorrect: expected false, got ' +
+            `${JSON.stringify(configSummary.disableDefaultQueries)}.`);
+        }
+        const expectedQueries = [{ type: 'builtinSuite', uses: 'code-quality' }];
+        // Use JSON.stringify to deep-equal the arrays.
+        if (JSON.stringify(configSummary.queries) !== JSON.stringify(expectedQueries)) {
+          core.setFailed(`\`queries\` property incorrect: expected ${JSON.stringify(expectedQueries)}, got ` +
+            `${JSON.stringify(configSummary.queries)}.`);
+        }
+        core.info('Finished config export tests.');