Although this version does give me a new problem - my chart only has keys in the chorus, because only then I can actually hear them. This acoustic version includes keys in the verse too. Now I have to wonder if it's buried in the studio version somewhere haha, or if it's just added live. Can't hear it anywhere!
When it comes to "ghost" harmonies, I'd say don't include them. I realize that isn't relevant here, but I just thought I'd mention it in case anybody finds this later. I had that issue with MoneyGrabber by Fitz and the Tantrums; live versions clearly had a different harmony, but I can't expect somebody to sing something they can't hear.
HOWEVER. I totally am all about a ghost keys part, since a person can press buttons (especially pro keys!) as directed. So I say go for it and include it in the verse if it sounds like it could go there. I'm actually doing that myself with My Silver Lining by First Aid Kit; I can't hear a keys part at all, but one exists on YouTube and it sounds perfectly natural as pro keys, so I'm including it.