Basically no matter what build you go with, you are going to find it hard for those not to be a pretty core part of your build if you play long enough. You can make it to day 21 or something without gardening or without barter or daring adventurer etc, but you are playing the game on hard mode. If you aren't purposely gimping yourself, all of those perks are 100 times better than any random other perk you think you need imo
I've never put a point in gardening. Why not just build 4x as many farm plots? Traders make food a non-issue. A meat stew might be 250 dukes, but wrenching down a single car and selling all the parts can get you 1k+
I also disagree that you better barter and daring adventurer are must have skills. Questing is certainly a viable strategy, but until you have a vehicle you'll spend most of your day running to and from the trader. Throwing down drop chests and spending the day clearing every single poi in a commercial/residential area is going to give you far better loot, more money and more xp.
I don't need to know what all the players are doing to see a meta coalescing. Too many game problems are solved in the Strength Tree right now.
I agree with most of your points here, however regardless of the nerfs to lucky looter its absolutely a must have skill for the increased search speed alone.
Salvage operations is one I tend to max out eventually. Salvage is an absolute cash cow. Salvage all the cars in town, pop a sugar butts and grandpa's awesome sauce and you can outright buy a 4x4 or gyrocopter in week 2.
Sex rex isn't the bees knees. 2 points will get you through the early/mid game after that you really only need it if you want to do lots of melee or like to mine without an auger.
Master Chef is a noob trap, I always find enough recipies that it's irrelevant.
Gardening is similarly silly, I have 8 plots of potatoes and corn, no shortage of food. Farm plots also make great base decorations.
Run and Gun is a must have, at least 1 point, now that you can put bandoleers in your pants additional points are probably not necessary.
The entire intellect tree would make me angry if you couldn't reset your stats. It's full of must-have-if-you-don't-have-the-book skills. Later when you have the books it's a big pile of wasted points.
The meta is controlled by the fact that shotguns and auto weapons are vastly overpowered compared to other options and that so many skills are rendered pointless by the correct books and mods. Pack mule, penetration for rifles, cooking, the entire intellect tree, you can mod away the penalties to heavy armor making light armor moot, etc.