Yesterday, I upgraded to MacOS Sierra and it broke my clipboard functionality in my tmux + neovim setup.
Here is the behavior:
I saw the same upon upgrading to Sierra. In my case it stemmed from having the YankRing plugin installed.
Adding the following to my .vimrc fixed it for me:
"-------------------------------------------------------------
" Fix for YankRing bug
"-------------------------------------------------------------
let g:yankring_clipboard_monitor=0