diff --git a/scripts/cross_reference.py b/scripts/cross_reference.py
index 24951b49..c3051b97 100644
--- a/scripts/cross_reference.py
+++ b/scripts/cross_reference.py
@@ -853,6 +853,16 @@ def main() -> None:
         )
         profiles = {k: v for k, v in profiles.items() if k in relevant}
         standalone_cores = standalone_set(config)
+    else:
+        # The tree as every platform runs it: a profile some platform runs
+        # standalone keeps its standalone entries. Laid out as libretro only,
+        # eka2l1, dolphin and xenia-edge lost 133 files no platform declares.
+        from common import list_registered_platforms
+
+        standalone_cores = set().union(*(
+            standalone_set(load_platform_config(name, args.platforms_dir))
+            for name in list_registered_platforms(args.platforms_dir, include_archived=True)
+        ))
 
     if not profiles:
         if args.emulator and args.target and set(args.emulator.split(",")) & run_anywhere:
diff --git a/scripts/generate_site.py b/scripts/generate_site.py
index d57ea385..df98933c 100644
--- a/scripts/generate_site.py
+++ b/scripts/generate_site.py
@@ -618,9 +618,14 @@ def build_emulator_gap_report(
         for k, v in profiles.items()
         if v.get("type") not in ("alias", "test")
     }
+    from common import standalone_set
+
     return run_cross_reference(
         unique_profiles, declared, db,
         data_names=data_names, all_declared=all_declared,
+        standalone_cores=set().union(
+            *(standalone_set(cov["config"]) for cov in coverages.values())
+        ),
     )
 
 
diff --git a/tests/test_audit_regressions.py b/tests/test_audit_regressions.py
index 0209b03f..9f561451 100644
--- a/tests/test_audit_regressions.py
+++ b/tests/test_audit_regressions.py
@@ -5287,5 +5287,22 @@ class ReportsHoldTheDataTrees(unittest.TestCase):
                 ))
 
 
+class TheTreeKeepsStandaloneEntries(unittest.TestCase):
+    """With no platform named, the gap report laid every dual profile out as
+    libretro only: eka2l1, dolphin and xenia-edge lost 133 files that
+    Batocera and RetroBat run standalone and no platform declares."""
+
+    def test_a_standalone_only_entry_is_reported(self):
+        if not (ROOT / "database.json").exists():
+            self.skipTest("database.json is not built")
+        out = subprocess.run(
+            [sys.executable, "scripts/cross_reference.py", "--emulator", "eka2l1"],
+            cwd=ROOT, capture_output=True, text=True, timeout=600, check=True,
+        ).stdout
+        undeclared = re.search(r"(\d+) undeclared", out)
+        self.assertIsNotNone(undeclared, out[-500:])
+        self.assertGreater(int(undeclared.group(1)), 0)
+
+
 if __name__ == "__main__":
     unittest.main()