I know I'm going to be called a fanboy or too generous to Apple, but given that the government has used every opportunity to call out Apple for not helping (when they have helped where they could) there is a line here that Apple is tip toeing around.
I also do not think this as bad as you are making it out to be. Apple has always been clear what is fully E2E encrypted and what is not. This article is about something Apple planned to do and decided against. The reasons are what's important and the article only speculates.