### 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)

TypedArray<StringName> groups;
	List<GroupInfo> gi;
	get_groups(&gi);
	for (const GroupInfo &E : gi) {
		groups.push_back(E.name);
	}
	return groups;
}
void Node::get_groups(List<GroupInfo> *p_groups) const {
	ERR_THREAD_GUARD
	for (const KeyValue<StringName, GroupData> &E : data.grouped) {
		GroupInfo gi;
		gi.name = E.key;
		gi.persistent = E.value.persistent;
		p_groups->push_back(gi);
	}
}
int Node::get_persistent_group_count() const {
	ERR_THREAD_GUARD_V(0);
	int count = 0;
	for (const KeyValue<StringName, GroupData> &E : data.grouped) {
		if (E.value.persistent) {
			count += 1;
		}
	}
	return count;
}
void Node::print_tree_pretty() {