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Is there any difference between including external javascript and CSS files and including all javascript and CSS files (even jQuery core!) inside html file, between <style>...</style> and <script>...</script> tags except caching? (I want to do something with that html file locally, so cache doesn’t matter)
The difference is that your browser doesn’t make those extra requests, and as you have pointed out, cannot cache them separately from the page.
From a functional standpoint, no, there is no difference once the resources have been loaded.