There’s two sides to every story. I would reserve judgment until and unless the City’s comes out.
BUT, in this case I trust Phil to have vetted it, and the nolle prossequi is kind of a hint of (a) the snarky unwillingness of the Commonwealth Attorney to say "We blew it," but also (b) the realization that the deputies had kicked a hornet's nest and they were going to lose if it came to trial.
It seems that the city has dropped all charges, that would seem to indicate that the police were in error.