I second that.
To what extend the ArM setting adopts Aristotlean metaphysics is a choice. I use it to a large extend. Partly because ME is neither a fantasy setting nor a non-fictional one - and my experience with roleplaying (especially sci-fi) is that both players and SG need a basic idea on how the physics of the setting work. Secondly I use it because it adds a lot of flavour.
Yes, Aristotle and many of the other classics had disagreements - not less surprising since many centuries divide many of the classic philosophers of antiquity. But what of 'disagreements' in terms of whom ME leans on? To me that is not so important - go for what suits the mechanics and the feel and mood of the way you want to run the setting - to me it is not an absolute that it has to lean on Aristotle.
Now, concerning Aristotle and the notion of respiration. I quoted Aristotle on this subject mainly because the quote was very fitting. But there is more to than that. First of all you might find the same notions on breathing expressed by Plato, Galen, Hippocrates or Avicenna etc so quoting an aptly fitting Aristotle does not necessarily put it at odds with many of the other authorities. Secondly 'Aristotlean' is the term most often put on pre-renaisance medicine as many of his ideas on the field gain supremacy even though other classics might have been closer to modern medical science.
And to round of with the history on medical science on respiration. The notion of the bodily humours survived well into the renaissance - and to some extent further. The notion that respiration, just as sweat, urine and snot, were to relieve the body of excess humour was connected to this notion. Respiratory diseases was just another unbalance and in terms of anatomy the heart was not really conceived as a pump (even if Galen had first hand gladiatorial experience with circulation) but rather either the place where blood was produced or a certain 'fire' - from which excess heat was passed through exhalation.
What genuinely challenged this notion of breathing only happened during the renaissance - mainly due to the new knowledge gained from dissections. This not only led to better insight into anatomy - it also posed a lot of questions to established medicine. Some of the most crucial strides in terms of disproving the bodily humour approach to respiration was done by a British trio in the 1660'ies. Centred in Oxford, and turmoiled by the English Civil War and the Commonwealth, an adherence to the 'new science' (although riddled with alchemical traditions) was appearing. Robert Lower inspired by Christopher Wren (best know for his architecture) succeeded in the first blood transfusion*. Richard Lower did extensive dissectional research to find proof that excess humour was or wasn't exhaled. Since excess humours were believed to travel to the brain and then onward to respiratory canals Lower did a fair bit of experimenting be injecting milk into the base of the skull to see where this would end up... In the end he formulated a thesis on circulation that shattered the notion of the humours; that respiration was not so much about exhaling something as in fact 'impregnating' the blood with a nourishing substance. Thus he laid the groundwork for a modern notion of respiration.
Richard Lowers** work was enforced, and the notion of 'impregnation', by his contemporary Robert Boyle. Boyle is most famous for his advances within physics and chemistry, but one of his discoveries furthered medical science. Inspired by German inventor Otto von Guericke's work with vacuum and helped on by his associate Robert Hooke Boyle succeeded in making a functional air pump. He soon noticed how both a candle and a mouse or bird simultaneous extinguish and die. He had established and proven asphyxiation.
18th century painting of Boyle and his bird.
This is all a very interesting tale I could not help but tell. The main point however, is that the notion of respiration was very different prior to the renaissance, and that arguing so in terms of the middle ages is no philosophical longshot. Whether you use Aristotle or not.
*A French contemporary physician, Jean Denis, who was a member of King Louis XIV's staff was working along the same lines, but since his work centered on an animal-to-human transfusion it would later be condemned by the medical society aswell as by the Pope.
** Richard Lower genuinely having a life long obsession with blood, for the better of all future people, it comes as no suprise that he was actually born and raised in the Cornwall town of Tremeer..!!