In the message, Cook called the story "absurd" and said its conclusions "don't match with reality." He didn't call out specific things he disagreed with, but claimed it failed to understand how Apple or its internal design team works, and that "It distorts relationships, decisions and events to the point that we just don't recognize the company it claims to describe."
The article noted that Ive declined to comment, but there's the official Apple side of things. In closing, Cook backed Ive's previous statement that the design team is "stronger than ever" and said "The products they're working on will blow you away." Most of Tim Cook's notable emails usually go out to Apple employees, but this does bring to mind a 2012 message he sent to a blogger defending the hiring of John Browett as Senior VP of retail. Browett was fired later that same year.