diff --git a/.github/workflows/deploy_branch.yml b/.github/workflows/deploy_branch.yml
index 6ec6a89b93..86db9e0b0c 100644
--- a/.github/workflows/deploy_branch.yml
+++ b/.github/workflows/deploy_branch.yml
@@ -13,7 +13,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/deploy_protected.yml b/.github/workflows/deploy_protected.yml
index 80b5225a15..b88c17a143 100644
--- a/.github/workflows/deploy_protected.yml
+++ b/.github/workflows/deploy_protected.yml
@@ -38,7 +38,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
     - uses: actions/checkout@v5
diff --git a/.github/workflows/deploy_release.yml b/.github/workflows/deploy_release.yml
index b7588133e8..251c626a61 100644
--- a/.github/workflows/deploy_release.yml
+++ b/.github/workflows/deploy_release.yml
@@ -23,7 +23,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
@@ -76,7 +76,7 @@ jobs:
 
     steps:
     - name: Set up Python
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: "3.11"
     - uses: actions/checkout@v5
diff --git a/.github/workflows/test_benchmark_collection_models.yml b/.github/workflows/test_benchmark_collection_models.yml
index 31a3d2ae5e..3860c6d783 100644
--- a/.github/workflows/test_benchmark_collection_models.yml
+++ b/.github/workflows/test_benchmark_collection_models.yml
@@ -26,7 +26,7 @@ jobs:
       AMICI_EXTRACT_CSE: ${{ matrix.extract_subexpressions }}
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
@@ -103,7 +103,7 @@ jobs:
       AMICI_EXTRACT_CSE: ${{ matrix.extract_subexpressions }}
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/test_doc.yml b/.github/workflows/test_doc.yml
index 851cd1c81f..c5f224fe61 100644
--- a/.github/workflows/test_doc.yml
+++ b/.github/workflows/test_doc.yml
@@ -22,7 +22,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
@@ -45,7 +45,7 @@ jobs:
 
     steps:
       - name: Set up Python ${{ matrix.python-version }}
-        uses: actions/setup-python@v5
+        uses: actions/setup-python@v6
         with:
           python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/test_install.yml b/.github/workflows/test_install.yml
index 5bc5df6fb0..bc3d1200fb 100644
--- a/.github/workflows/test_install.yml
+++ b/.github/workflows/test_install.yml
@@ -15,7 +15,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
@@ -56,7 +56,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
@@ -89,7 +89,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/test_performance.yml b/.github/workflows/test_performance.yml
index 0239d712a9..b1cc611b9a 100644
--- a/.github/workflows/test_performance.yml
+++ b/.github/workflows/test_performance.yml
@@ -18,7 +18,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/test_petab_test_suite.yml b/.github/workflows/test_petab_test_suite.yml
index 5df669167f..46947f5237 100644
--- a/.github/workflows/test_petab_test_suite.yml
+++ b/.github/workflows/test_petab_test_suite.yml
@@ -24,7 +24,7 @@ jobs:
 
     steps:
       - name: Set up Python ${{ matrix.python-version }}
-        uses: actions/setup-python@v5
+        uses: actions/setup-python@v6
         with:
           python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/test_pypi.yml b/.github/workflows/test_pypi.yml
index c89bdea4d2..d7d65131df 100644
--- a/.github/workflows/test_pypi.yml
+++ b/.github/workflows/test_pypi.yml
@@ -36,7 +36,7 @@ jobs:
           fi
 
       - name: Set up Python ${{ matrix.python-version }}
-        uses: actions/setup-python@v5
+        uses: actions/setup-python@v6
         with:
           python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/test_python_cplusplus.yml b/.github/workflows/test_python_cplusplus.yml
index e7d7fd8700..40351f1adf 100644
--- a/.github/workflows/test_python_cplusplus.yml
+++ b/.github/workflows/test_python_cplusplus.yml
@@ -27,7 +27,7 @@ jobs:
         key: ${{ runner.os }}-py${{ matrix.python-version }}-${{ github.job }}
 
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
@@ -129,7 +129,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
@@ -212,7 +212,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
@@ -250,7 +250,7 @@ jobs:
 
     steps:
     - name: Set up Python
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: "3.11"
 
@@ -315,7 +315,7 @@ jobs:
         key: ${{ runner.os }}-py${{ matrix.python-version }}-${{ github.job }}
 
     - name: Set up Python
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: "3.11"
 
diff --git a/.github/workflows/test_python_nogil.yml b/.github/workflows/test_python_nogil.yml
index ad1fc42a28..e04f3b2c44 100644
--- a/.github/workflows/test_python_nogil.yml
+++ b/.github/workflows/test_python_nogil.yml
@@ -16,7 +16,7 @@ jobs:
     steps:
     - run: echo "AMICI_DIR=$(pwd)" >> $GITHUB_ENV
     - name: Set up Python 3.13 free-threaded
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: '3.13'
         freethreaded: true
diff --git a/.github/workflows/test_python_ver_matrix.yml b/.github/workflows/test_python_ver_matrix.yml
index eb67ef8d37..d9229d4f09 100644
--- a/.github/workflows/test_python_ver_matrix.yml
+++ b/.github/workflows/test_python_ver_matrix.yml
@@ -31,7 +31,7 @@ jobs:
     - run: echo "BNGPATH=${AMICI_DIR}/ThirdParty/BioNetGen-2.7.0" >> $GITHUB_ENV
 
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/test_sbml_semantic_test_suite.yml b/.github/workflows/test_sbml_semantic_test_suite.yml
index da9872411d..da98fe2aa7 100644
--- a/.github/workflows/test_sbml_semantic_test_suite.yml
+++ b/.github/workflows/test_sbml_semantic_test_suite.yml
@@ -32,7 +32,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/test_sbml_semantic_test_suite_jax.yml b/.github/workflows/test_sbml_semantic_test_suite_jax.yml
index 4c1b3c5321..695bb1a7f3 100644
--- a/.github/workflows/test_sbml_semantic_test_suite_jax.yml
+++ b/.github/workflows/test_sbml_semantic_test_suite_jax.yml
@@ -27,7 +27,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/test_valgrind.yml b/.github/workflows/test_valgrind.yml
index 504f5036f5..098fcce03f 100644
--- a/.github/workflows/test_valgrind.yml
+++ b/.github/workflows/test_valgrind.yml
@@ -31,7 +31,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
@@ -85,7 +85,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/test_windows.yml b/.github/workflows/test_windows.yml
index baae8c1436..76487d1a38 100644
--- a/.github/workflows/test_windows.yml
+++ b/.github/workflows/test_windows.yml
@@ -27,7 +27,7 @@ jobs:
 
     steps:
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: ${{ matrix.python-version }}