I've heard some stuff from the BGS community and we found some stuff out on our own as well.
BAsically, there doesn't seem to be any change to the previous way of fighting optimally in a CZ, which is to kill at least 3 ships (some say 1 single eagle is enough to make a transaction) and gain at least 75-100k in bonds, then hand in, and do this as many times as possible, to gain the most effect, as the system is transaction based. This means the scenarios (which give a small bonus to the war effort very small, based on testing by some groups) are definitely NOT worth completing if you are actually going for max war effort effect in shortest possible time. Naturally, due to how long it takes to kill two or three ships compared to how long it takes to complete the scenario, to complete the scenario every time you go is to handicap the side you are working for (assuming the opposition also know this and are executing it in a transactional way). One of the state goals of the CZ changes was to make staying and killing more ships a worthwhile thing to do. It seems not to have worked, as that is still a suboptimal way to win a war.
While the new CZs are fun, there seem to be a lot of issues. Not least of all the fact that we've now had two patches and still no negative influence (described upon completing the scenario) is actually being applied. Don't get me wrong, this is good thing, but it just goes to show that some aspects of this are probably still on the drwaing board.
@OP as for whether they got a buff, hell yeah, they got a buff. CZ ships are engineered now and there's some speculation that their module protection is either extreme or bugged, so just go for sustained dps until you hear otherwise, cos their modules are now hard as nails.