### Godot version

v4.1.stable.official [970459615]

### System information

Godot v4.1.stable - Windows 10.0.22621 - Vulkan (Forward+) - dedicated NVIDIA GeForce GTX 1660 Ti (NVIDIA; 31.0.15.3598) - AMD Ryzen 7 3700X 8-Core Processor (16 Threads)

### Issue description

is_input_handled() is returning True, even though set_input_as_handled() has not been called.

Example:
`func _input_event(viewport, event, shape_idx):
	print(viewport.is_input_handled())`

Returns 'True', should return 'False'

### Steps to reproduce

1. Create a new project and add a Node2D as the root
2. Add a child Area2D node containing a CollisionShape2D and a Sprite2D
3. Either create the _input_event(viewport, event, shape_idx) or connect _on_input_event(viewport, event, shape_idx)
4. Print viewport.is_input_handled()
5. True is printed.

### Minimal reproduction project

[input_test.zip](https://github.com/godotengine/godot/files/12063748/input_test.zip)

if (gui.dragging) {
			
			Control *drag_preview = _gui_get_drag_preview();
			if (drag_preview) {
				drag_preview->set_position(mpos);
			}
			gui.drag_mouse_over = over;
			gui.drag_mouse_over_pos = Vector2();
			
			
			Viewport *embedder = nullptr;
			Vector2 viewport_pos;
			if (is_embedding_subwindows()) {
				embedder = this;
				viewport_pos = mpos;
			} else {
				
				Window *w = Object::cast_to<Window>(this);
				if (w) {
					if (w->is_embedded()) {
						embedder = w->get_embedder();
						viewport_pos = get_final_transform().xform(mpos) + w->get_position(); 
					}
				}
			}
			Viewport *viewport_under = nullptr;
			if (embedder) {
				
				for (int i = embedder->gui.sub_windows.size() - 1; i >= 0; i--) {
					Window *sw = embedder->gui.sub_windows[i].window;