### Godot version

4.2 dev1

### System information

Windows 10.0.19045 - Vulkan (Forward+) - dedicated NVIDIA GeForce GTX 1060 (NVIDIA; 30.0.15.1403) - Intel(R) Core(TM) i7-7700HQ CPU @ 2.80GHz (8 Threads)

### Issue description

Calling `Tree.propagate_check()` after an item is unchecked does not properly uncheck the parents. They are left in partially checked state.

It's easy to observe in theme editor:

https://github.com/godotengine/godot/assets/2223172/71d0479c-0a5e-48d3-957f-d90379a95c22



### Steps to reproduce

1. Edit a Theme resource
2. Go to Manage Items... menu
3. Go to Import Items tab
4. Unfold something
5. Check and uncheck a child checkbox

### Minimal reproduction project

N/A
value_editor->set_max(c.max);
			value_editor->set_step(c.step);
			value_editor->set_value(c.val);
			value_editor->set_exp_ratio(c.expr);
			updating_value_editor = false;
		} else {
			value_editor->hide();
		}
		popup_editor->set_position(popup_rect.position);
		popup_editor->set_size(popup_rect.size);
		popup_editor->popup();
		popup_editor->child_controls_changed();
		line_editor->grab_focus();
		return true;
	} else if (c.mode == TreeItem::CELL_MODE_STRING && c.edit_multiline) {
		line_editor->hide();
		text_editor->clear();
		text_editor->set_text(c.text);
		text_editor->select_all();
		text_editor->show();
		popup_editor->set_position(get_screen_position() + rect.position);
		popup_editor->set_size(rect.size);
		popup_editor->popup();
		popup_editor->child_controls_changed();
		text_editor->grab_focus();
		return true;
	}
	return false;
}
bool Tree::is_editing() {