### Godot version

v4.2.dev.custom_build [0ca854232]

### System information

Pop Os 22.04 lts 12th Gen Intel® Core™ i7-12700H × 20 NVIDIA RTX A2000 8GB 32.0GB  ram

### Issue description

A node that has a script attached to it and it has a couple of child nodes (type of a child node doesn't matter). In the script you have an export variable of type Node. You save the scene into a file and you add it in level scene. When you start to duplicate that scene in the level and you'll hover over exported variable to show a node path, it will show an incorrect path. 


https://github.com/godotengine/godot/assets/33091666/75088d1b-c014-41e0-bae3-46610eccbad1



### Steps to reproduce

1. create a scene with a node and a child node.
2. attach a script to the parent node and create an export variable of type Node
3. assign child node to that exported variable through the editor
4. save the scene and create a level scene where you are going to add just saved scene.
5. _Possibly requires a reboot of the engine before seeing the bug_
6. start duplicating nodes in the level scene

### Minimal reproduction project

[NodeTest.zip](https://github.com/godotengine/godot/files/12781547/NodeTest.zip)

ClassDB::bind_method(D_METHOD("set_multiplayer_authority", "id", "recursive"), &Node::set_multiplayer_authority, DEFVAL(true));
	ClassDB::bind_method(D_METHOD("get_multiplayer_authority"), &Node::get_multiplayer_authority);
	ClassDB::bind_method(D_METHOD("is_multiplayer_authority"), &Node::is_multiplayer_authority);
	ClassDB::bind_method(D_METHOD("get_multiplayer"), &Node::get_multiplayer);
	ClassDB::bind_method(D_METHOD("rpc_config", "method", "config"), &Node::rpc_config);
	ClassDB::bind_method(D_METHOD("set_editor_description", "editor_description"), &Node::set_editor_description);
	ClassDB::bind_method(D_METHOD("get_editor_description"), &Node::get_editor_description);
	ClassDB::bind_method(D_METHOD("_set_import_path", "import_path"), &Node::set_import_path);
	ClassDB::bind_method(D_METHOD("_get_import_path"), &Node::get_import_path);
	ClassDB::bind_method(D_METHOD("set_unique_name_in_owner", "enable"), &Node::set_unique_name_in_owner);
	ClassDB::bind_method(D_METHOD("is_unique_name_in_owner"), &Node::is_unique_name_in_owner);
#ifdef TOOLS_ENABLED
	ClassDB::bind_method(D_METHOD("_set_property_pinned", "property", "pinned"), &Node::set_property_pinned);
#endif
	ADD_PROPERTY(PropertyInfo(Variant::NODE_PATH, "_import_path", PROPERTY_HINT_NONE, "", PROPERTY_USAGE_NO_EDITOR | PROPERTY_USAGE_INTERNAL), "_set_import_path", "_get_import_path");
	{
		MethodInfo mi;
		mi.arguments.push_back(PropertyInfo(Variant::STRING_NAME, "method"));
		mi.name = "rpc";
		ClassDB::bind_vararg_method(METHOD_FLAGS_DEFAULT, "rpc", &Node::_rpc_bind, mi);
		mi.arguments.push_front(PropertyInfo(Variant::INT, "peer_id"));
		mi.name = "rpc_id";
		ClassDB::bind_vararg_method(METHOD_FLAGS_DEFAULT, "rpc_id", &Node::_rpc_id_bind, mi);
	}
	ClassDB::bind_method(D_METHOD("update_configuration_warnings"), &Node::update_configuration_warnings);
	{
		MethodInfo mi;
		mi.name = "call_deferred_thread_group";
		mi.arguments.push_back(PropertyInfo(Variant::STRING_NAME, "method"));
		ClassDB::bind_vararg_method(METHOD_FLAGS_DEFAULT, "call_deferred_thread_group", &Node::_call_deferred_thread_group_bind, mi, varray(), false);