I disagree with all of OP's points.
I like the checkpoint system, it makes the game harder. When you're wasted, you go to hospital. You respawn at the hospital with full health and you lose the ammo you have used. I like that, death has consequence, bullets/explosives have meaning, it makes me sit on the edge of my seat shitting myself when there is a warehouse full of people and I'm on 1/4 health. I miss that from games, the majority are far too fucking easy now.
I've never had a problem with the controls, they work fine for me. If I want to look at something I can just stop running and look around, or press the aim button. The cover system is quite annoying at times, but I never really use it. I found it much easier to aim at a wall, look around the corner, pop out and shoot. Cover is good at times if there are huge amounts of people and I don't want to take damage, especially with how accurate the blindfire is.
I like #3 as well, you don't even have to do it. The game autosaves after every mission, when you reboot you will be in the nearest safehouse. It's only necessary if you want to manually save. I don't want the game to play itself, after instant saves people will want instant cars in their garages, and then instant teleportation to missions. Never had a problem with #4 either, I usually fuck around a lot in between missions anyway, so I'll know how to do most things.
I really hope they don't go down the path of #5, or at least not as excessively as Saints Row 2, which killed it. San Andreas is lots of fun, and it does it much better than SR does. It feels like a child developed the SR activities. I know you can beat people down with dildos on San Andreas, and it's quite hilarious at moments. What's different is GTA doesn't sell itself on its gimmicks. The SR3 trailer is someone kicking a pedestrian in the balls, you know they're gonna milk the shit out of stuff like that. That's what they do. I'm not gonna lie and say SR isn't fun, it is for a while, but once you have experienced it for more than 5 hours you realise it's just a string of gimmicks. GTA holds up better than that with an involving story, amazing map, fun gameplay, huge scope etc, and then it has the ridiculous stuff on top of that.
I don't really know what to hope for with the next instalment of GTA, I'd be happy with just a continuation of GTA IV. If I had to pick something though it'd be nice if the map was more varied, I love San Andreas' map for that reason, it has loads of different environments. Monster trucks, planes, BMXs etc would be cool too, I'd like to see them on the engine they're using, would be dope.