diff --git a/.github/workflows/codespell.yml b/.github/workflows/codespell.yml
index 7b6140c4d..2404046c0 100644
--- a/.github/workflows/codespell.yml
+++ b/.github/workflows/codespell.yml
@@ -18,6 +18,6 @@ jobs:
 
     steps:
       - name: Checkout
-        uses: actions/checkout@v5
+        uses: actions/checkout@v6
       - name: Codespell
         uses: codespell-project/actions-codespell@v2
diff --git a/.github/workflows/deno-jsr.yml b/.github/workflows/deno-jsr.yml
index 94bb73617..d485d3327 100644
--- a/.github/workflows/deno-jsr.yml
+++ b/.github/workflows/deno-jsr.yml
@@ -15,7 +15,7 @@ jobs:
       contents: read
       id-token: write # The OIDC ID token is used for authentication with JSR.
     steps:
-      - uses: actions/checkout@v5
+      - uses: actions/checkout@v6
       - uses: denoland/setup-deno@v2
         with:
           deno-version: v2.x
diff --git a/.github/workflows/deno.yml b/.github/workflows/deno.yml
index d5a005a06..344bbba83 100644
--- a/.github/workflows/deno.yml
+++ b/.github/workflows/deno.yml
@@ -24,7 +24,7 @@ jobs:
       run:
         working-directory: ./cli
     steps:
-      - uses: actions/checkout@v5
+      - uses: actions/checkout@v6
       - uses: denoland/setup-deno@v2
         with:
           deno-version: v2.x
diff --git a/.github/workflows/docker-publish.yml b/.github/workflows/docker-publish.yml
index 23bb4651d..4f6be1673 100644
--- a/.github/workflows/docker-publish.yml
+++ b/.github/workflows/docker-publish.yml
@@ -8,7 +8,7 @@ jobs:
     name: Server
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v5
+      - uses: actions/checkout@v6
       - name: login to docker hub
         id: docker-hub
         env:
@@ -28,7 +28,7 @@ jobs:
     name: App
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v5
+      - uses: actions/checkout@v6
       - name: login to docker hub
         id: docker-hub
         env:
@@ -48,7 +48,7 @@ jobs:
     name: Indexer
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v5
+      - uses: actions/checkout@v6
       - name: login to docker hub
         id: docker-hub
         env:
@@ -68,7 +68,7 @@ jobs:
     name: Datalad Service
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v5
+      - uses: actions/checkout@v6
       - name: login to docker hub
         id: docker-hub
         env:
diff --git a/.github/workflows/docker.yml b/.github/workflows/docker.yml
index 198cb1270..e5261ec0b 100644
--- a/.github/workflows/docker.yml
+++ b/.github/workflows/docker.yml
@@ -7,7 +7,7 @@ jobs:
     name: Server
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v5
+      - uses: actions/checkout@v6
       - name: build the docker image
         id: build-docker-image
         run: |
@@ -17,7 +17,7 @@ jobs:
     name: App
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v5
+      - uses: actions/checkout@v6
       - name: build the docker image
         id: build-docker-image
         run: |
@@ -27,7 +27,7 @@ jobs:
     name: Indexer
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v5
+      - uses: actions/checkout@v6
       - name: build the docker image
         id: build-docker-image
         run: |
@@ -37,7 +37,7 @@ jobs:
     name: Datalad Service
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v5
+      - uses: actions/checkout@v6
       - name: build the docker image
         id: build-docker-image
         run: |
diff --git a/.github/workflows/docs.yml b/.github/workflows/docs.yml
index 38fc49d44..500447a4a 100644
--- a/.github/workflows/docs.yml
+++ b/.github/workflows/docs.yml
@@ -16,7 +16,7 @@ jobs:
       matrix:
         mode: ["build", "check"]
     steps:
-      - uses: actions/checkout@v5
+      - uses: actions/checkout@v6
       - name: Set up Python
         uses: actions/setup-python@v6
         with:
diff --git a/.github/workflows/eslint.yml b/.github/workflows/eslint.yml
index 805d521c1..023e0bd26 100644
--- a/.github/workflows/eslint.yml
+++ b/.github/workflows/eslint.yml
@@ -10,7 +10,7 @@ jobs:
   eslint:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v5
+      - uses: actions/checkout@v6
       - name: Use Node.js
         uses: actions/setup-node@v6
         with:
diff --git a/.github/workflows/health-check.yml b/.github/workflows/health-check.yml
index e68ca7b2a..62059ad4d 100644
--- a/.github/workflows/health-check.yml
+++ b/.github/workflows/health-check.yml
@@ -29,7 +29,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout
-        uses: actions/checkout@v5
+        uses: actions/checkout@v6
       - name: Install the latest version of uv
         uses: astral-sh/setup-uv@v7
       - run: scripts/check-github-sync
diff --git a/.github/workflows/python.yml b/.github/workflows/python.yml
index b0c56ff46..de10d5af1 100644
--- a/.github/workflows/python.yml
+++ b/.github/workflows/python.yml
@@ -13,7 +13,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout
-        uses: actions/checkout@v5
+        uses: actions/checkout@v6
       - name: Set up Python 3.13 (uv)
         uses: astral-sh/setup-uv@v7
         with:
diff --git a/.github/workflows/typescript.yml b/.github/workflows/typescript.yml
index 19252ac88..f9afbc089 100644
--- a/.github/workflows/typescript.yml
+++ b/.github/workflows/typescript.yml
@@ -11,7 +11,7 @@ jobs:
       matrix:
         node-version: [22.x, 24.x]
     steps:
-      - uses: actions/checkout@v5
+      - uses: actions/checkout@v6
       - name: Use Node.js ${{ matrix.node-version }}
         uses: actions/setup-node@v6
         with: