I missed two things (one of them have not been discussed anyplace)
I liked it. Great to see the heros side by side. And I loved pretty much all the scenes Superman was in.
However, I missed to learn more about the Flash-future-sending-message-thing we see in BvS. I can rationalized it away, but I would have liked it not to be completely ignored - a few comments from Bruce had been in place, for example to solidify Lois importance in the revival.. or just how he knew this would set him straight.
Secondly, in MOS we see that one of the sleeping-pods in the "Fortress of Solitude" is opened and empty. The others have dead skeletons in them. Who is this other person? Supergirl? Likely, but I had really hoped to see some hints or direct connections to this empty pod.
Thirdly, even though I liked it tremendously, it feels to have so much more on the cutting floor. Hope for an ultimate Snyder version.