### Godot version

3.5.2.stable, 4.0.1.stable

### System information

Arch Linux

### Issue description

When the `Show Hidden Files` property is enabled in the Editor Settings:
![image](https://user-images.githubusercontent.com/6501975/226908540-8e70e520-3dcd-46e4-beaf-103ac176c1de.png)
Any `FileDialog` nodes from the project will inherit this setting, and their `Show Hidden Files` property is set to true everytime the scene is re-opened:

https://user-images.githubusercontent.com/6501975/226909135-a8fafdf7-ca36-40aa-b69a-a7baf2d7ae4f.mp4


This occurs on 3.5.2 as well.

### Steps to reproduce

- Enable `Show Hidden Files` property in the Editor Settings:
    - Reload Godot for the bug to occur
- Create a FileDialog node, and set it's `Show Hidden Files` property to false
- Save and close the scene, and reopen it
- The `Show Hidden Files` property is reset to true.

### Minimal reproduction project

N/A
valid_source_owner = valid_source_owner->get_owner();
				}
			}
			if (!source_node || valid_source_owner == nullptr) {
				
				if (!c.callable.is_custom()) {
					valid_connections_from.push_back(c);
				}
			}
		}
		
		List<Node::GroupInfo> groups;
		p_node->get_groups(&groups);
		if (!modified_properties.is_empty() || !valid_connections_to.is_empty() || !valid_connections_from.is_empty() || !groups.is_empty()) {
			ModificationNodeEntry modification_node_entry;
			modification_node_entry.property_table = modified_properties;
			modification_node_entry.connections_to = valid_connections_to;
			modification_node_entry.connections_from = valid_connections_from;
			modification_node_entry.groups = groups;
			p_modification_table[p_root->get_path_to(p_node)] = modification_node_entry;
		}
	} else {
		AdditiveNodeEntry new_additive_node_entry;
		new_additive_node_entry.node = p_node;
		new_additive_node_entry.parent = p_root->get_path_to(p_node->get_parent());
		new_additive_node_entry.owner = p_node->get_owner();
		new_additive_node_entry.index = p_node->get_index();
		Node2D *node_2d = Object::cast_to<Node2D>(p_node);
		if (node_2d) {
			new_additive_node_entry.transform_2d = node_2d->get_relative_transform_to_parent(node_2d->get_parent());