You're not supposed to stop at a yield sign if there isn't traffic preventing you from merging. That's why it's a yield sign, not a stop sign.
Since the report mentions Apple's car was moving slowly (~1mph) when it got hit, I suspect what could've happened is it may have just released the brakes and was about to accelerate into the merge, meaning the car coming from behind would see both a clear path in front of it and its brake lights off.
There's a comment here about the car behind following too closely, but if you look at regular traffic and your own driving behaviour, you'll find that you subconsciously monitor and anticipate the behaviour of the cars around you --- meaning that almost everyone is technically "following too closely" to expect the car in front to suddenly and rapidly brake to a complete halt. Self-driving cars are far less predictable in that sense. If you come up behind a car in a merge lane with its brake lights off and no traffic obstructing it, you would not expect it to be slowing down or even stopped, because your past knowledge has taught you that a car in this condition is almost certainly going to be accelerating.