What is the config to attach transparent face to object

I think you are asking about the edges that seemingly are not connected to your faces. See the selected edge in the images below.

This "floating clear face" problem will only show up in edit mode from objects with a Subdivision Surface Modifier. Reason being by default in edit mode you see the "cage mesh" (the vertices, edges, and faces without the modifier.) Blender also displays the modified mesh in edit mode. So in my top image you end up with the default cube (still visible as the cage) and a subdivided round ball in the center (the modified mesh.)

Notice the Show on cage button highlighted in red in the second image, that toggles the display of the cage to show on the modified mesh. (Shown in the second image.)

There is no problem with your mesh, no invisible faces, or unconnected parts, just a Subdivision Surface Modifier.

The little black square is always at the center of verts which creates the face. So if you have concave or non-flat ngons then the square won't be located on the surface, but this isn't a useful thing.