Wally Keefe being paralysed didn't seem to drag on to me, and was integral in Lex sewing more distrust in Superman, and Superman to doubt himself.
The Apocalypse knightmare - don't agree with you on that either. People complain about it being confusing now, imagine if they only got 5 seconds of it? Also that is necessary to set up the threat of Superman going bad that Flash comes back to confirm.
Finally - why does Batman's suit need explaining? That statement I find a little strange, and seems like reaching for anything to beat the movie with to be honest... Batman, a hero with the biggest rogues gallery in all of comics... that include guys like Bane, Croc... hell even Solomon Grundy... a hero who's known for gadgets like the Batmobile, Batwing, Batboat etc... the guy has gadgets for most situations, and the movie showed that Alfred was continually working on stuff! It's just nitpicking and a fne example of DC getting pulled apart where Marvel gets off! Funny nobody says "why isn't it explained how Tony Stark can afford to build all those suits" or "They need to explain how Cap can call his shield back to him".
As for unbalanced... don't agree there either. Seen the film 3 times now and the film never drags at all for me. I like the first hour in all honesty there's lots going on. I especially liked that you saw Bruce being detective - moreso than previous movies, and it also showed Clark being a reporter, again moreso than any previous movies... even the Donner movies, where you never actually see Clark do anything but spill coffee or be clumsy in general around the office. Also it's a pretty standard device for the movie to scene set for a big finale.