I am using the transfer node to pipe a stack of stone into the altar diviner and it doesn't show the stack of stone above the altar diviner like it would if you placed it in manually, and the stone is actually in the diviner I can get it out with an empty hand or breaking it

Upon further testing it seems that only the transfer nodes have this issue, BC pipes and enderio conduits render the stone correctly

I'll take a look and try to fix that for next version. Thanks a lot for reporting it to me!

Are you sure this happens? I have tried and found no way to replicate it, the stone always renders correctly above the diviner
http://puu.sh/b8K0b.jpg

When I was testing it I was using the transfer nodes to push into the top so its possible the transfer pipe may be blocking the render

That would be the cause!