diff --git a/editor/import/3d/resource_importer_scene.cpp b/editor/import/3d/resource_importer_scene.cpp
index 56b67db30288..a54e832674f5 100644
--- a/editor/import/3d/resource_importer_scene.cpp
+++ b/editor/import/3d/resource_importer_scene.cpp
@@ -1535,6 +1535,12 @@ Node *ResourceImporterScene::_post_fix_node(Node *p_node, Node *p_root, HashMap<
 					Ref<Material> mat = m->get_surface_material(i);
 					if (mat.is_valid()) {
 						String mat_id = mat->get_meta("import_id", mat->get_name());
+
+						if (mat_id.is_empty() && mat->has_meta("unique_id")) {
+							mat_id = mat->get_meta("unique_id");
+							mat->remove_meta("unique_id");
+						}
+
 						if (!mat_id.is_empty() && p_material_data.has(mat_id)) {
 							Dictionary matdata = p_material_data[mat_id];
 							{
diff --git a/editor/import/3d/scene_import_settings.cpp b/editor/import/3d/scene_import_settings.cpp
index 727577204db3..d1376b463b1d 100644
--- a/editor/import/3d/scene_import_settings.cpp
+++ b/editor/import/3d/scene_import_settings.cpp
@@ -228,6 +228,8 @@ void SceneImportSettingsDialog::_fill_material(Tree *p_tree, const Ref<Material>
 	} else if (!p_material->get_name().is_empty()) {
 		import_id = p_material->get_name();
 		has_import_id = true;
+	} else if (p_material->has_meta("unique_id")) {
+		import_id = p_material->get_meta("unique_id");
 	} else if (unnamed_material_name_map.has(p_material)) {
 		import_id = unnamed_material_name_map[p_material];
 	} else {
diff --git a/modules/gltf/gltf_document.cpp b/modules/gltf/gltf_document.cpp
index 7ed443cf18e8..ee4d3717241a 100644
--- a/modules/gltf/gltf_document.cpp
+++ b/modules/gltf/gltf_document.cpp
@@ -3784,6 +3784,7 @@ Error GLTFDocument::_parse_meshes(Ref<GLTFState> p_state) {
 				} else {
 					Ref<StandardMaterial3D> mat3d;
 					mat3d.instantiate();
+					mat3d->set_meta("unique_id", vformat("%s@%s", import_mesh->get_name(), itos(j)));
 					if (has_vertex_color) {
 						mat3d->set_flag(StandardMaterial3D::FLAG_ALBEDO_FROM_VERTEX_COLOR, true);
 					}