Actually there is, because the system will maintain the battery as required automatically.
By definition, the requirement was for the batteries to be at 50% SOC which would obviate any significant difference in the two cases. Further, I'm not sure where you would get the idea that "automatic" battery maintenance would be any better than leaving it alone. Let's look at what happens over the warranty period (1 year) under identical ambient conditions.
Case#1 - Battery initial condition is 50% SOC. Over the year, at an ambient of 20 Deg. C it will self-discharge to a lower state of charge - say 35%. This is almost ideal for maintaining battery capacity. The only way it could be better is if the ambient temperature was lower. At year end, the battery is capable of a very high proportion of its original capacity - say 97%.
Case#2 - Battery initial condition is 50% SOC and the battery management system is programmed to maintain this SOC. Over the year, with the computer turned on, it will operate on AC power exclusively until a drop in the SOC due to self-discharge exceeds a threshold of, say, 5%. So after perhaps a few weeks or month a charge cycle will initiated to bring it back to 50%. By the end of the year the battery will have gone through several of these very shallow charge cycles and at the end of the year the SOC of the battery will be between 45 and 50%. Again, this is very good for maintaining battery capacity. But it is NOT as good as Case #1 because inside the computer the battery is exposed to a higher temperature. The situation is as good as it can be though and the capacity at the end is still very good. 95% might be a reasonable guess.
People are lazy. People forget. People make bad judgement calls.
No doubt!
I guarantee that if Apple permitted/required that end users maintain their battery charge level manually the number of battery problems they would have to repair would skyrocket.
If the BMS (battery management system) in the computer was removed and battery management was replaced by the average user, the battery problems would do more than skyrocket. I doubt the batteries would last one cycle!
If not removed, the BMS protects against almost anything bad that a user can do. The only exception is a user who discharges it down to 0% and leaves it unused. Then the battery will eventually be damaged by over discharge due to natural self-discharge.
Apple have a battery charge retention policy of something like 1000 cycles / 3 years they will warrant the battery for. They program their controllers to meet this as best they can based on decades of experience with battery tech.
An end user is not going to do any better than this, guaranteed.
It is a falsehood that Apple's BMS will be programmed to provide the maximum possible life. This wouldn't make any sense. It wouldn't be their design goal because it sacrifices too much run time on a charge. Rather, their design goal would be a compromise between battery life and discharge cycle run time. They would want to keep warranty claims and bad publicity to a manageable level whilst maximizing the run time they can put in their advertising literature. Therefore, a knowledgeable user can EASILY improve on the battery life. And doing this isn't rocket science. The easiest way to do this is to stop the charge cycle at a lower SOC - say 80%. But it is silly to ask a user to do this - there should be a settable option for the BMS to do this automatically!

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The power controller in modern Apple laptops is smart enough to offer near-optimal battery treatment without any user interaction. It will try to keep the battery at optimal charge levels and also cycle it slightly when used with power brick in order to prolong its life. I doubt it very much that you can do much better with manual micro-management.
It depends on what you mean by "near-optimal battery treatment". If by this, you mean Apples design goals for the desired compromise between battery life and single discharge cycle capacity, then yes. If by this you mean maximum possible battery life alone, then no.
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Besides.
What's to say what apple call "100%" in the OS is not in fact actually closer to 80% of how far the battery could be pushed? For all we know apple is limiting battery to 80% of its actual capacity by design for battery longevity guarantees.
You are right. Apple (or anyone else) can call 100% whatever cell termination voltage they want. 100% can be the normal 4.2V/cell. Or it can be 4.15 or 4.1 to prolong battery life. Depending on cell construction, it can even be as high as about 4.35V/cell to increase available discharge capacity. Along with reduced life, this comes with greater risk of catastrophic failure. But never lose sight of the penalty for reducing the SOC at charge termination - it is a huge blow to the marketing of the device due to the shorter run time!
An interesting data point here is an electric car. Here, a lithium ion battery must last through a much longer warranty period. What do they do? Well, they do several things, and guess what? One of them is to reduce the actual SOC at "full charge". In this case, sacrificing range (aka run time) is mandatory to avoid a warranty claim disaster.