diff --git a/core/main.mk b/core/main.mk
index 5767ef4..6935efa 100644
--- a/core/main.mk
+++ b/core/main.mk
@@ -1186,9 +1186,10 @@
 # still may create these libraries in /system (b/129006418).
 DISABLE_APEX_LIBS_ABSENCE_CHECK ?=
 
-# Allow APEX libraries under /system/apex, which happens when APEX flattening
-# is enabled.
-APEX_LIBS_ABSENCE_CHECK_EXCLUDE := apex
+# Allow APEX libraries under:
+# /system/apex, which happens when APEX flattening is enabled.
+# /system/system_ext, which happens with GSI
+APEX_LIBS_ABSENCE_CHECK_EXCLUDE := apex system_ext
 
 # Bionic should not be in /system, except for the bootstrap instance.
 APEX_LIBS_ABSENCE_CHECK_EXCLUDE += lib/bootstrap lib64/bootstrap