### Godot version

4.2 beta 2

### System information

Pop Os 22.04 lts 12th Gen Intel® Core™ i7-12700H × 20 NVIDIA RTX A2000 8GB 32.0  ram. Tested on Forward+ and Mobile

### Issue description

When painting a tile that is rotated or flipped, it looses its physics layer as demonstrated in this video:  

https://github.com/godotengine/godot/assets/33091666/c10f7325-838f-4112-b90d-0c3d9797d08f

Even though in the video I showed this only happening with one of the tiles, it happens with both of them as long as you rotate or flip it. 

### Steps to reproduce

1. Create a tilemap and a tileset
2. Create a physics layer and set collision_visibility_mode to force show. 
3. Assign just created physics layer to tiles
4. Paint the tiles and use rotate or flip tool. 

### Minimal reproduction project

[TileTest.zip](https://github.com/godotengine/godot/files/13067412/TileTest.zip)
return allow_transform;
}
TileData *TileData::duplicate() {
	TileData *output = memnew(TileData);
	output->tile_set = tile_set;
	output->allow_transform = allow_transform;
	
	output->flip_h = flip_h;
	output->flip_v = flip_v;
	output->transpose = transpose;
	output->texture_origin = texture_origin;
	output->material = material;
	output->modulate = modulate;
	output->z_index = z_index;
	output->y_sort_origin = y_sort_origin;
	output->occluders = occluders;
	
	output->physics = physics;
	
	output->terrain_set = -1;
	memcpy(output->terrain_peering_bits, terrain_peering_bits, 16 * sizeof(int));
	
	output->navigation = navigation;
	
	output->probability = probability;
	
	output->custom_data = custom_data;
	return output;
}
void TileData::set_flip_h(bool p_flip_h) {