I actually just watched all those on Easter weekend. S/B Public Enemies, S/B Apocalypse, and Superman Unbound all appear to be in the same continuity.
The first two are, since they're adaptations of a 2-part arc. I don't think the third was intended to be. They had different voice casts, which usually denotes a different continuity in the DCU series. The two S/B features reunited Tim Daly, Kevin Conroy, and other DCAU veterans, while
Unbound had Matt Bomer as Superman (an interesting choice, since he'd been mooted on the Internet as a possible live-action Superman before Cavill was cast). Also, S/B:A had Summer Glau as Supergirl while S:U had Molly C. Quinn, and I think the two Supergirls had different characterizations. There's also the fact that the first two were produced by Timm, while
Unbound was the producing debut of James Tucker.
And then all the recent stuff has been in the same continuity starting with JL Flashpoint, JL War, JL Throne of Atlantis, all the Bat movies...
The Flashpoint Paradox doesn't quite fit with the subsequent New 52-based continuity. It did show a new timeline being established, but the voices and character designs, as well as the Batman-Flash relationship at the end of the film, didn't match what the later films showed. Maybe TFP counts as sort of a rough pilot for the subsequent series, but it's an imperfect fit.
And, again, it's not
all the recent stuff, just 2/3 of it. Each year features two in-continuity movies (one JL, one Batman) and one out-of-continuity standalone.