diff --git a/lib/entry-points.js b/lib/entry-points.js
index dcbb94c2f..cdbd6ab82 100644
--- a/lib/entry-points.js
+++ b/lib/entry-points.js
@@ -159658,15 +159658,18 @@ function getConfigFileInput(logger, actions, repositoryProperties, useRepository
     logger.info(`Using configuration file input from workflow: ${input}`);
     return input;
   }
-  if (!useRepositoryProperty) {
-    return void 0;
-  }
   const propertyValue = repositoryProperties["github-codeql-config-file" /* CONFIG_FILE */];
   if (propertyValue !== void 0 && propertyValue.trim().length > 0) {
-    logger.info(
-      `Using configuration file input from repository property: ${propertyValue}`
-    );
-    return propertyValue;
+    if (useRepositoryProperty) {
+      logger.info(
+        `Using configuration file input from repository property: ${propertyValue}`
+      );
+      return propertyValue;
+    } else {
+      logger.info(
+        "Ignoring configuration file input from repository property, because the corresponding feature flag is disabled."
+      );
+    }
   }
   return void 0;
 }
diff --git a/src/config/file.test.ts b/src/config/file.test.ts
index 442d74e85..fef608829 100644
--- a/src/config/file.test.ts
+++ b/src/config/file.test.ts
@@ -101,4 +101,9 @@ test("getConfigFileInput ignores repository property value when FF is off", asyn
       "Using configuration file input from repository property",
     ),
   );
+  t.true(
+    logger.hasMessage(
+      "Ignoring configuration file input from repository property, because the corresponding feature flag is disabled.",
+    ),
+  );
 });
diff --git a/src/config/file.ts b/src/config/file.ts
index 9df95cc01..6b8dfdcdc 100644
--- a/src/config/file.ts
+++ b/src/config/file.ts
@@ -21,19 +21,21 @@ export function getConfigFileInput(
     return input;
   }
 
-  // Don't take the repository property into consideration if the FF is not enabled.
-  if (!useRepositoryProperty) {
-    return undefined;
-  }
-
   const propertyValue =
     repositoryProperties[RepositoryPropertyName.CONFIG_FILE];
 
   if (propertyValue !== undefined && propertyValue.trim().length > 0) {
-    logger.info(
-      `Using configuration file input from repository property: ${propertyValue}`,
-    );
-    return propertyValue;
+    // Only use the repository property value if the FF is enabled.
+    if (useRepositoryProperty) {
+      logger.info(
+        `Using configuration file input from repository property: ${propertyValue}`,
+      );
+      return propertyValue;
+    } else {
+      logger.info(
+        "Ignoring configuration file input from repository property, because the corresponding feature flag is disabled.",
+      );
+    }
   }
 
   return undefined;