The left-handed-hitting outfielder will undergo surgery on his neck in the near future.
"It was an issue that needs surgery to resolve [a problem] involving one of his vertebrae behind his neck," said Red Sox general manager Theo Epstein. "I understand that it's not the most invasive surgery. It's sort of something that he'll be able to bounce back from 100 percent.
"The way procedures are these days with modern medicine, it's a very good success rate with no limitations going forward after that. ... Obviously, it's a tough break for him. It's kind of a lost season for him. It's really unfortunate, but it's not something that should get in the way of next year."
Kalish actually made it back in August, playing games for Class A Lowell and Triple-A Pawtucket. But it became obvious there were still complications from the injury.
"I think he'll be fine," said Red Sox manager Terry Francona. "I don't think that's an issue. I think what everybody feels bad about is that the kid lost a year, basically -- a really big year of development. And he'll come back and be fine. But it basically cost him a year, and now it's going to cut into his winter. But he's a tough enough kid, and he'll do whatever it takes. There's a ton of confidence in his ability to come back. It just cost him a year of development."