diff --git a/scripts/pylib/twister/twisterlib/runner.py b/scripts/pylib/twister/twisterlib/runner.py
index be3d64adc08837..28e3dae80cdc83 100644
--- a/scripts/pylib/twister/twisterlib/runner.py
+++ b/scripts/pylib/twister/twisterlib/runner.py
@@ -329,11 +329,15 @@ def run_cmake(self, args="", filter_stages=[]):
             warnings_as_errors = 'n'
             gen_defines_args = ""
 
+        warning_command = 'CONFIG_COMPILER_WARNINGS_AS_ERRORS'
+        if self.testsuite.sysbuild:
+            warning_command = 'SB_' + warning_command
+
         logger.debug("Running cmake on %s for %s" % (self.source_dir, self.platform.name))
         cmake_args = [
             f'-B{self.build_dir}',
             f'-DTC_RUNID={self.instance.run_id}',
-            f'-DCONFIG_COMPILER_WARNINGS_AS_ERRORS={warnings_as_errors}',
+            f'-D{warning_command}={warnings_as_errors}',
             f'-DEXTRA_GEN_DEFINES_ARGS={gen_defines_args}',
             f'-G{self.env.generator}'
         ]
diff --git a/scripts/tests/twister/test_runner.py b/scripts/tests/twister/test_runner.py
index 7a492e94918179..b07ab333f8965d 100644
--- a/scripts/tests/twister/test_runner.py
+++ b/scripts/tests/twister/test_runner.py
@@ -368,7 +368,7 @@ def mock_popen(*args, **kwargs):
      None, None,
      [os.path.join('dummy', 'cmake'),
       '-B' + os.path.join('build', 'dir'), '-DTC_RUNID=1',
-      '-DCONFIG_COMPILER_WARNINGS_AS_ERRORS=y',
+      '-DSB_CONFIG_COMPILER_WARNINGS_AS_ERRORS=y',
       '-DEXTRA_GEN_DEFINES_ARGS=--edtlib-Werror', '-Gdummy_generator',
       '-S' + os.path.join('source', 'dir'),
       'arg1', 'arg2',
@@ -382,7 +382,7 @@ def mock_popen(*args, **kwargs):
      'error', 'Cmake build failure',
      [os.path.join('dummy', 'cmake'),
       '-B' + os.path.join('build', 'dir'), '-DTC_RUNID=1',
-      '-DCONFIG_COMPILER_WARNINGS_AS_ERRORS=n',
+      '-DSB_CONFIG_COMPILER_WARNINGS_AS_ERRORS=n',
       '-DEXTRA_GEN_DEFINES_ARGS=', '-Gdummy_generator',
       '-Szephyr_base/share/sysbuild',
       '-DAPP_DIR=' + os.path.join('source', 'dir'),