I usually work with large numbers of files at once and when I finish a
project I want to close the window, including all the documents it
contains. But I am so used to pressing command-W to close a window
that I end up closing a document instead.

You can change the behaviour using prefs but it doesn't work: just
reverts back to the standard keys when a document window is at the
front. Am I doing something wrong, is this a bug, or a deliberate
behaviour?

Another issue with windows is that the documents often change their
order when the project is re-opened. I sort of need certain critical
documents first.

On a related note: why can't we re-order the documents in the side bar?

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