doc: Remove long obsolete references to `package-initialize`

Since Emacs-27, `package-initialize` is for internal use only,
and callers should either call `package-activate-all` instead
(cheaper and faster) or do nothing at all (because the other
functions should trigger the needed initialization automatically
as needed).

* doc/lispref/package.texi (Packaging Basics): Delete `package-initialize`.

* doc/misc/eglot.texi (Reporting bugs): Don't recommend using `package-initialize`.

* doc/misc/org.org (Using Emacs packaging system): Simplify the command
line since both `(require 'package)` and `(package-initialize)` are
redundant here.

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