diff --git a/src/modules/logger/watchdog.cpp b/src/modules/logger/watchdog.cpp
index 32e4f76fce..124753809c 100644
--- a/src/modules/logger/watchdog.cpp
+++ b/src/modules/logger/watchdog.cpp
@@ -49,7 +49,7 @@ namespace logger
 bool watchdog_update(watchdog_data_t &watchdog_data)
 {
 
-#ifdef __PX4_NUTTX
+#if defined(__PX4_NUTTX) && defined(CONFIG_BUILD_FLAT)
 
 	if (system_load.initialized && watchdog_data.logger_main_task_index >= 0
 	    && watchdog_data.logger_writer_task_index >= 0) {
@@ -133,7 +133,7 @@ bool watchdog_update(watchdog_data_t &watchdog_data)
 
 void watchdog_initialize(const pid_t pid_logger_main, const pthread_t writer_thread, watchdog_data_t &watchdog_data)
 {
-#ifdef __PX4_NUTTX
+#if defined(__PX4_NUTTX) && defined(CONFIG_BUILD_FLAT)
 
 	// The pthread_t ID is equal to the PID on NuttX
 	const pthread_t pid_logger_writer = writer_thread;