^ That's correct. The entire first volume of Batman, Inc takes place in the DCU prior to Flashpoint. The second volume starts sometime between the first "Batman and Robin" New 52 arc and *now*. At least that is how I understand things.
What's even more migraine inducing is that Bruce has now has a "missing year" since Final Crisis no longer exists. His entire motivation for establishing Batman, Inc has been invalidated by the relaunch lol.