diff --git a/scripts/tests/yaml/runner.py b/scripts/tests/yaml/runner.py
index 746fc01656f135..87a57c76f296c7 100755
--- a/scripts/tests/yaml/runner.py
+++ b/scripts/tests/yaml/runner.py
@@ -344,7 +344,10 @@ def chip_repl(parser_group: ParserGroup, adapter: str, stop_on_error: bool, stop
     runner_hooks = TestRunnerLogger(show_adapter_logs, show_adapter_logs_on_error, use_test_harness_log_format)
     runner_config = TestRunnerConfig(adapter, parser_group.pseudo_clusters, runner_options, runner_hooks)
 
-    runner = __import__(runner, fromlist=[None]).Runner(repl_storage_path, commission_on_network_dut)
+    node_id_to_commission = None
+    if commission_on_network_dut:
+        node_id_to_commission = parser_group.builder_config.parser_config.config_override['nodeId']
+    runner = __import__(runner, fromlist=[None]).Runner(repl_storage_path, node_id_to_commission=node_id_to_commission)
     loop = asyncio.get_event_loop()
     return loop.run_until_complete(runner.run(parser_group.builder_config, runner_config))
 
diff --git a/src/controller/python/py_matter_yamltest_repl_adapter/matter_yamltest_repl_adapter/runner.py b/src/controller/python/py_matter_yamltest_repl_adapter/matter_yamltest_repl_adapter/runner.py
index 40f19221358f68..aecba0b2c454e0 100644
--- a/src/controller/python/py_matter_yamltest_repl_adapter/matter_yamltest_repl_adapter/runner.py
+++ b/src/controller/python/py_matter_yamltest_repl_adapter/matter_yamltest_repl_adapter/runner.py
@@ -28,12 +28,12 @@
 
 
 class Runner(TestRunner):
-    def __init__(self, repl_storage_path: str, commission_on_network_dut: bool):
+    def __init__(self, repl_storage_path: str, node_id_to_commission: int = None):
         self._repl_runner = None
         self._chip_stack = None
         self._certificate_authority_manager = None
         self._repl_storage_path = repl_storage_path
-        self._commission_on_network_dut = commission_on_network_dut
+        self._node_id_to_commission = node_id_to_commission
 
     async def start(self):
         chip.native.Init()
@@ -43,13 +43,8 @@ async def start(self):
             chip_stack, chip_stack.GetStorageManager())
         certificate_authority_manager.LoadAuthoritiesFromStorage()
 
-        commission_device = False
         if len(certificate_authority_manager.activeCaList) == 0:
-            if self._commission_on_network_dut is False:
-                raise Exception(
-                    'Provided repl storage does not contain certificate. Without commission_on_network_dut, there is no reachable DUT')
             certificate_authority_manager.NewCertificateAuthority()
-            commission_device = True
 
         if len(certificate_authority_manager.activeCaList[0].adminList) == 0:
             certificate_authority_manager.activeCaList[0].NewFabricAdmin(
@@ -58,9 +53,13 @@ async def start(self):
         ca_list = certificate_authority_manager.activeCaList
 
         dev_ctrl = ca_list[0].adminList[0].NewController()
-        if commission_device:
-            # These magic values are the defaults expected for YAML tests
-            dev_ctrl.CommissionWithCode('MT:-24J0AFN00KA0648G00', 0x12344321)
+
+        # Unfortunately there is no convenient way to confirm if the provided node_id has
+        # already been commissioned. At this point we blindly trust that we should commission
+        # device with the provided node id.
+        if self._node_id_to_commission is not None:
+            # Magic value is the defaults expected for YAML tests.
+            dev_ctrl.CommissionWithCode('MT:-24J0AFN00KA0648G00', self._node_id_to_commission)
 
         self._chip_stack = chip_stack
         self._certificate_authority_manager = certificate_authority_manager