Right. Tweaking Bad! If you have everything totally stock - porting, pipes, cylinder heads, carbs, intake and air cleaner, and stock ignition timing, you can be pretty confident with the stock jets, at least to get going. The concern is to run the motor too lean, and getting it too hot which expands the piston(s) which makes them too tight in the bore = partial (or worse) seizure.
So the notion is to err on the fuel rich side and plenty of oil until things are known to be sorted out. You have things very easy as Yamaha has already done this, so all you have to worry about is compensating for any modifications you have made or variances in production. Assuming on your first real test ride you intend to break in the motor, you will be loading the motor briefly enough that you should have no worries. You can always start with rich jetting to be sure, but if all stock, why would the stock jets not be ok? I can not see the intake side of the carbs in your pics, but if stock, I'd start with the stock jets. If altered, go with bigger jets.
It is sort of like excess oil: The only down side is fouled spark plugs which are cheap. Too little oil and seizure. Not so cheap
Same thing with excess fuel. The only down side is fouled spark plugs which are cheap. Too little fuel, too much heat and seizure. Not so cheap.
And likely you are not going to need a zillion spark plugs. I always start very rich on fuel and oil, and usually get the motor broken in, jetted close enough to actually run hard with the plugs I started it with. Often enough the first new plugs go in when I plan to do my first plug chop.
When in doubt, always jet rich. Gasoline engines are principally cooled by the gasoline itself. In order to burn, the liquid gasoline must be converted to a gas. This is called the heat of vaporization and takes substantial energy to do, and the energy comes in the form of heat from the reaction itself. Consider an engine running with a fuel to air ratio richer than ideal. There is a surplus of fuel to vaporize and thus keeping the engine cool is easy. As the ratio of fuel to air becomes leaner and closer to perfect, the more energy (power) is produced by the chemical reaction and with it more heat. At the same time, there is less fuel to vaporize to remove heat. Once there is just a little too little fuel, there is still plenty of chemical reaction heat, but no longer enough vaporizing fuel to consume excess heat, and the engines mechanical cooling system must suffice. Since this system has a fairly finite limit, it is easy to see that as soon as the liquid gasoline stops being supplied in sufficient quantities to keep temperatures at bay, the whole thing will heat up more and more with every revolution. So too lean motors get hot rather quickly and often dramatically. TWEAK!
As to when to do plug chops, anytime after the motor is broken in is fine. Plug chops can be likened to taking a snapshot of your engine while it is making maximum power. Maximum power comes with making maximum heat. Guess what happens if it is too lean!