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ll types of flying are roughly equally damaging in their environmental impact
Not true, as we've already told you there are huge differences between flying economy with a budget airline for a short flight and travelling first class across the Atlantic. It's not just about how spaced out the seats are, all that champagne, food, hot towels, real china etc. needs energy to get into the sky.
Well. Read your second sentence here again. It's straightforwardly true because you can make distinctions between different types of flying. However, what you appear to mean, that one ought to evaluate different types of flying (based on whatever criteria, let's not worry about those for now) is something I consider completely irrelevant, as all types of flying are roughly equally damaging in their environmental impact. The seemingly essential, comparatively harmless kind, like in your example ...
... together are easily as damaging as the comparatively low numbers of individually more damaging flights, e.g. private jets. There is a symbiosis, so you want to deal with it all together.
And, as ever with things that are merely the symptom, not the cause, flying fails to achieve basic utility and doesn't compensate for what is behind it, which is the basic problem with (particularly motorised) transportation: It is a symptom of a lack of sustainable arrangements for living, i.e. that XYZ isn't local, can't be got locally, etc., e.g. their 'essential' training thatm, despite being essential, isn't available in Ilagan, although it obviously should be.
In the example of the Philippines, their rail network is almost non-existent:
https://en.wikipedia.org/wiki/Rail_transport_in_the_Philippines
Rail is not massively sustainable, but vastly more so than flying or motorised road transport. The internal flights are merely a symptom of the lack of rail (so far, I note plans to expand rail). (I don't say 'a symptom of the lack of roads', as the last thing I want to see are more motorways.) Perpetuating flying there is only going to delay investment in better forms of transport. Needless to say, the Philippines are a mountainous island country and it won't be possible everywhere to build rail or RRORO ferries, but with modern engineering it's not at all impossible.
Yes. Concentrate on the underlying causes and not the symptoms.