First off, I think Malifaux is a great game, and I dont really 'hate' anything about it, just somethings annoy me.
I respectfully disagree with those that dont like how the negative flips and the jokers are handled, i think it leads to unpredicability and excitement that you can't get by rolling a d6.
In general, Neverborn annoy me. Most of their stuff is overpowered, although i wouldn't say it's somehow broken. Especially when learning the game, their tricks seem dirty, compared to someone playing a more striaghtforward crew, like from the Guild, the Viks, and Von Shill. Iv'e seen people use every dirty neverborn trick in the book, this side of the 'filth list' against a new player who's playing his 1st or 2nd game. In part it seems like the 'screw having fun i wanna win at all costs so I can stroke my fragile ego' players tend to lean towards playing Neverborn because it is a top tier faction (whether or not neverborn being 'broken' or superpowerful is real or just percieved to be). Regardless of the type of player who is playing Neverborn, IMHO alot of the times it is not fun to play against, independant of who wins. Maybe this is more of a criticism of certain types of players over criticism of the game itself, but 2 main things drew me away from warhammer 40k and towards this crazy new game called Malifaux. One being that it seemedlike a totally different play style (with cards instead of dice) then 40k, and also that it seemed more like a 'beer and pretzels' game where you can be competitive but its still fun. Opposed to 40k, where it devolves into more of a WAAC (win at all costs) type of game.
A great thing about Malifaux over, say 40k, is that it has a lower barrier to entry, both in cost and in the basic rules. And although it can be nice to have a rules Marshall who pays attention to the Malifaux community and can quickly respond to rules questions, (unlike in 40k were Games Workshop *might* release a FAQ in say, oh i dunno maybe the next few years) I agree with you guys that it can be a bit chaotic to find out what exactly the official ruling is.
Lelu/lelitu and the stitched annoy me lol, again I personally don't enjoy playing against them. I always like to mix it up and play a different list everytime/almost everytime, But its just too predictable to see overpowered models like Lelu and Lelitu being used every single time. Which one is it, the Stitched?, that can deny your opponent kill points towards the slaughter Strategy? Yeah, running 2 of them, thus denying your opponent even the opportunity to kill them so he can add them to his killed total is unfair. (This has NOT happened to me personally).
Book 2 in general seems overpowered in comparason to book 1, but so far it looks to me like book 3 is on par.
In conclusion, Malifaux still is kickass!