It is not how any of this dialog has gone.
Your statement "With freedom come choices" when "reversed" can be parallel-scanned (a take on your usage of "scan") not as "With choices come freedom", but as "With freedom, choices come." I think it can be better understood, if we "reverse" "With a whole chicken comes legs" to "With legs come a whole chicken" and compare against "With a whole chicken, legs come" -- that illustrates the point more clearly.
English is not a programming construct -- the only rule which always applies it that no rules always apply.
So, then, why do we hear of such "rules"? The answer is that whoever is telling us such rules does not fully understand that they are guides to help you ensure your writing is comprehensible or done well.
Statements which start with a preposition ("with", in this case) are not always the best fit, though sometimes they are. For example, "With great power comes great responsibility" is a well-known statement in English coming from the Sci-Fi realm.
If, however, someone were to say to me, "With freedom come choices," I would ask, "which choices?" If they said, on the other hand, "Freedom gives you the privilege of choice," I would know exactly what they were saying.
The question we as writers should ask ourselves is, "Does my statement convey what I have intended?" The answer should define our writing.
If you're looking for a mathematical formula, your writing will sound like a mathematical formula. As a professor in my mathematics classes once stated, "there is no substitute for professional judgement." Subsequently, write to communicate your ideas/intentions/etc and then have others review your writing to ensure you have fulfilled your goal(s).