### Godot version

4.0 stable

### System information

Windows 10

### Issue description

Running .clear() on a TileMap with Scene tiles leaves the tiles in place, as though nothing happened.

This appears to be the same issue as raised in [#69596](https://github.com/godotengine/godot/issues/69596), [#72456](https://github.com/godotengine/godot/pull/72456), and [67330](https://github.com/godotengine/godot/pull/67330). None of the previous issues seem to have presented a fix for this issue besides running some dummy operations on the TileMap, which have not had any effect for me.

Manually running queue_free() on each tile scene doesn't work, presumably since they are being cached. And running a dummy operation on the TileMap doesn't have any impact to speak of.

Not sure how to proceed, or if it's just impossible to remove Scene tiles once they're created.

### Steps to reproduce

The minimal reproduction project has a TileMap with several simple scene tiles. The attached script attempts to .clear() the TileMap when the user presses Enter, demonstrating my issue.

### Minimal reproduction project

[TileMapMinimumRecreationProject.zip](https://github.com/godotengine/godot/files/10959111/TileMapMinimumRecreationProject.zip)

layers[index]->set_tile_data(format, p_value);
			emit_signal(CoreStringNames::get_singleton()->changed);
			return true;
		} else {
			return false;
		}
	}
	return false;
}
bool TileMap::_get(const StringName &p_name, Variant &r_ret) const {
	Vector<String> components = String(p_name).split("/", true, 2);
	if (p_name == "format") {
		r_ret = TileMapLayer::FORMAT_MAX - 1; 
		return true;
	} else if (components.size() == 2 && components[0].begins_with("layer_") && components[0].trim_prefix("layer_").is_valid_int()) {
		int index = components[0].trim_prefix("layer_").to_int();
		if (index < 0 || index >= (int)layers.size()) {
			return false;
		}
		if (components[1] == "name") {
			r_ret = get_layer_name(index);
			return true;
		} else if (components[1] == "enabled") {
			r_ret = is_layer_enabled(index);
			return true;
		} else if (components[1] == "modulate") {
			r_ret = get_layer_modulate(index);
			return true;
		} else if (components[1] == "y_sort_enabled") {
			r_ret = is_layer_y_sort_enabled(index);