WCVB's transmitter is one of 4 that share the ill-fated top master antenna on the nearby CBS Tower, which had to be removed, rebuilt, and re-installed last summer. They were able to keep the Comcast feed active throughout those various outages.
Both a Zenith DTV box on one set, and a direct-connected Samsung TV, showed no signal, but that may, as you suggest, only indicate lack of a valid DTV signal. I have a Sencore level meter, but was just not motivated at that hour to check <g>.
I also don't know how long the PSIP data had been missing. My first thought when I saw the crawl was that there was a new problem with the master antenna, and decided to check WBZ, etc., and when I hit the down channel button from what should be 5.1, landed next on 12.2 (WPRI), which is why I noticed WCVB was displaying as 20-3.
They seemed eager to get to work, and must have been waiting for the end of the infomercial on 5.1 at 1:35 AM - since they pulled the plug during the disclaimer that follows those - somewhat humorously leaving that frame frozen on Comcast.
Perhaps there had been a bigger failure earlier, and the non-PSIP signal was the result of some temporary work-around. All just a guess, of course.