diff --git a/.ci/scripts/test-native.sh b/.ci/scripts/test-native.sh
index 98139a453e2..fadbfe75840 100644
--- a/.ci/scripts/test-native.sh
+++ b/.ci/scripts/test-native.sh
@@ -36,8 +36,9 @@ case "${component}" in
       -DEXECUTORCH_BUILD_NATIVE_VISION_RUNNER=ON
       -DGGML_NATIVE=OFF
     )
-    targets+=(run_hf_llm_ggml native_ggml_engine_test native_llm_runner_utils_test run_classification_ggml_cpu)
-    test_regex='^native_(ggml_engine|llm_runner_utils)_test$'
+    # TODO: run the other sample tests once they pass.
+    targets+=(run_hf_llm_ggml native_ggml_engine_test native_llm_runner_utils_test run_classification_ggml_cpu native_output_check_test native_ggml_sample_test)
+    test_regex='^native_(ggml_engine|llm_runner_utils|output_check)_test$|^native_ggml_sample_test_act_quant$'
     ;;
   vulkan)
     cmake_args+=(
diff --git a/.github/workflows/test-native.yml b/.github/workflows/test-native.yml
index c7a7aae2f0c..71d051f1679 100644
--- a/.github/workflows/test-native.yml
+++ b/.github/workflows/test-native.yml
@@ -17,6 +17,8 @@ on:
       - backends/cpu/CMakeLists.txt
       - backends/cpu/runtime/**
       - backends/native/**
+      - backends/cadence/utils/FACTO
+      - backends/test/suite/operators/test_linear.py
       - backends/vulkan/CMakeLists.txt
       - backends/vulkan/cmake/**
       - backends/vulkan/runtime/api/**
@@ -113,9 +115,10 @@ jobs:
 
           if [[ "${NATIVE_COMPONENT}" == "ggml" ]]; then
             ./install_requirements.sh --use-pt-pinned-commit
-            # The LLM runner test imports executorch from src/ without installing the
-            # wheel, so install its export-time dependencies directly.
-            pip install flatbuffers ruamel.yaml tabulate \
+            # The LLM runner test and the op sample generator import executorch from
+            # src/ without installing the wheel, so install their export-time
+            # dependencies directly.
+            pip install flatbuffers gguf ruamel.yaml tabulate \
               "$(grep -E '^transformers\b' requirements-examples.txt)"
           fi
 
diff --git a/backends/native/test/CMakeLists.txt b/backends/native/test/CMakeLists.txt
index 523d450ba50..0874426cc68 100644
--- a/backends/native/test/CMakeLists.txt
+++ b/backends/native/test/CMakeLists.txt
@@ -58,10 +58,10 @@ add_custom_command(
     ${CMAKE_COMMAND} -E env MKL_CBWR=COMPATIBLE ONEDNN_MAX_CPU_ISA=AVX2
     ATEN_CPU_CAPABILITY=avx2 OMP_NUM_THREADS=1 MKL_NUM_THREADS=1
     "PYTHONPATH=${EXECUTORCH_ROOT}/src:${EXECUTORCH_ROOT}/backends/cadence/utils/FACTO"
-    ${PYTHON_EXECUTABLE} -m executorch.backends.native.test.samples.generate
-    --out ${_native_op_samples}
+    FLATC_EXECUTABLE=$<TARGET_FILE:flatc> ${PYTHON_EXECUTABLE} -m
+    executorch.backends.native.test.samples.generate --out ${_native_op_samples}
   COMMAND ${CMAKE_COMMAND} -E touch ${_native_op_samples}.stamp
-  DEPENDS ${_native_op_samples_srcs}
+  DEPENDS flatc ${_native_op_samples_srcs}
           ${EXECUTORCH_ROOT}/backends/test/suite/operators/test_linear.py
   VERBATIM
 )
diff --git a/backends/native/test/runtime/ggml/BUCK b/backends/native/test/runtime/ggml/BUCK
index ad23a997116..94105c0a11f 100644
--- a/backends/native/test/runtime/ggml/BUCK
+++ b/backends/native/test/runtime/ggml/BUCK
@@ -108,8 +108,8 @@ _VARIANTS = [
         ] + flags,
         env = v.get("env", {}) | v.get("sample_env", {}),
         remote_execution = v.get("remote_execution"),
-        # TODO: run in CI once they pass.
-        labels = ci.labels(ci.map(ci.skip_test())),
+        # TODO: run the others in CI once they pass.
+        labels = [] if v["suffix"] + name == "_act_quant" else ci.labels(ci.map(ci.skip_test())),
         test_main = "//executorch/backends/native/test/samples:sample_test_main",
         deps = [":ggml_engine_host" + v["suffix"]],
         **v.get("compat", {})