I'll give it a go.
I don't have a problem with them when done in a way where the wrestler has a logical setup to a big move. Also, I feel the signature spots kind of give you a guidepost to where the match is. While a casual fan may not pick up on this conciously, it works on a subconcious level and can add to the drama when, as mentioned below, wrestler A kicks out of wrestler B's big finish or stops his sequence and adds something different to the mix. Our gut is telling us this should be the end but something happens to change that and it can add to the drama.
I don't get this one, either. The Evil Commissioner has taken the place of the old school manager but it's not a good substitution. Even when there are babyface commissioners (other than Teddy Long) they are usually portrayed as incompetent and in over their heads. The Evil Commissioner flies in the face of almost all the story telling logic. If you can make the babyface jump through all these hoops to get the title off of him, and you do, why not just strip him of it in the first place? I would like to see a return to the wrestlers having specific managers that can cheat and connive with an overseeing Commissioner being the voice of reason and the voice of the fans.
This goes along with the above "Five Moves of Doom". I think it's a good thing for pacing and, when well established, really can get someone over. If a finishing move is built up and well established, a wrestler kicking out or breaking it can really have a big impact on a match and for the wrestler himself. One of the problems with not having squash matches anymore is that, other than a top few guys, finishers aren't over. Setting an expectation and delivering on it 80-90% of the time makes those times when you go a different way much more special.