### Godot version

v4.2.dev.custom_build [60f3b7967]

### System information

Debian Linux X11 Xfce

### Issue description

Physics Picking within a `SubViewport` happens with `InputEventMouse` even when mouse events are disabled via `SubViewportContainer.mouse_filter = Control.MOUSE_FILTER_IGNORE`

The problem is that passive hovering still happens in the `SubViewport` with `SubViewportContainer.mouse_filter = Control.MOUSE_FILTER_IGNORE`.

I assume that it is a regression from #78017.

This was initially reported as a side-effect in #79271, which got closed, because the main issue was resolved.



### Steps to reproduce

1. Load and run MRP
2. move mouse over Icon

I would expect, that the `Area2D` receives no `InputEventMouse`, however it gets `_input_event` and also mouse-entered and mouse-exited signals.

### Minimal reproduction project

[IgnorePassiveHover.zip](https://github.com/godotengine/godot/files/12044510/IgnorePassiveHover.zip)

ERR_MAIN_THREAD_GUARD;
	gui.canvas_sort_index = 0;
}
int Viewport::gui_get_canvas_sort_index() {
	ERR_MAIN_THREAD_GUARD_V(0);
	return gui.canvas_sort_index++;
}
void Viewport::gui_release_focus() {
	ERR_MAIN_THREAD_GUARD;
	if (gui.key_focus) {
		Control *f = gui.key_focus;
		gui.key_focus = nullptr;
		f->notification(Control::NOTIFICATION_FOCUS_EXIT, true);
		f->queue_redraw();
	}
}
Control *Viewport::gui_get_focus_owner() const {
	ERR_READ_THREAD_GUARD_V(nullptr);
	return gui.key_focus;
}
void Viewport::set_msaa_2d(MSAA p_msaa) {
	ERR_MAIN_THREAD_GUARD;
	ERR_FAIL_INDEX(p_msaa, MSAA_MAX);
	if (msaa_2d == p_msaa) {
		return;
	}
	msaa_2d = p_msaa;
	RS::get_singleton()->viewport_set_msaa_2d(viewport, RS::ViewportMSAA(p_msaa));
}
Viewport::MSAA Viewport::get_msaa_2d() const {