I believe there is a regression, but possibly intentional, caused by this
patch:
https://github.com/emacs-mirror/emacs/commit/203e61ff837128b397eb313a5bb1b703f0eae0ec

This affects minibuffers created when (kbd-macro-query t) is called as
part of the hook that runs when the (read-from-minibuffer) function is
called. You get the error message "Not in most nested command loop". For
example, this code here:
https://www.emacswiki.org/emacs/KeyboardMacros#h5o-5

Or, pasting the code in question:

    (defun my-macro-query (arg)
      "Prompt for input using minibuffer during kbd macro execution.
    With prefix argument, allows you to select what prompt string to use.
    If the input is non-empty, it is inserted at point."
      (interactive "P")
      (let* ((prompt (if arg (read-from-minibuffer "PROMPT: ") "Input: "))
             (input (minibuffer-with-setup-hook (lambda () (kbd-macro-query
t))
                      (read-from-minibuffer prompt))))
        (unless (string= "" input) (insert input))))
    (global-set-key (kbd "C-x Q") 'my-macro-query)

If you attempt to start a keyboard macro via F3, then attempt to read a
minibuffer with the above code via C-x Q, upon pressing ENTER to close
the minibuffer, you get the following error message:
"Not in most nested command loop"

You won't be able to close out the minibuffer, the only way I found to
proceed was to C-] or multiple escapes, which canceled the keyboard
macro creation. As a result, it appears we can't use the above method to
read and set variables during keyboard macro creation. I'm not sure if
this is intentional or not, or if there's a replacement for the above or
not. But it appears to be a regression from before that series of patches.


In GNU Emacs 29.1 (build 1, x86_64-pc-linux-gnu, GTK+ Version 3.24.38,
cairo version 1.17.8)
Windowing system distributor 'Microsoft Corporation', version 11.0.12010000
System Description: Arch Linux

Configured using:
 'configure --with-x-toolkit=gtk3 --with-native-compilation=aot
 --sysconfdir=/etc --prefix=/usr --libexecdir=/usr/lib
 --with-tree-sitter --localstatedir=/var --with-cairo
 --disable-build-details --with-harfbuzz --with-libsystemd
 --with-modules 'CFLAGS=-march=x86-64 -mtune=generic -O2 -pipe -fno-plt
 -fexceptions -Wp,-D_FORTIFY_SOURCE=2 -Wformat -Werror=format-security
 -fstack-clash-protection -fcf-protection -g
 -ffile-prefix-map=/build/emacs/src=/usr/src/debug/emacs -flto=auto'
 'LDFLAGS=-Wl,-O1,--sort-common,--as-needed,-z,relro,-z,now -flto=auto'
 'CXXFLAGS=-march=x86-64 -mtune=generic -O2 -pipe -fno-plt -fexceptions
 -Wp,-D_FORTIFY_SOURCE=2 -Wformat -Werror=format-security
 -fstack-clash-protection -fcf-protection -Wp,-D_GLIBCXX_ASSERTIONS -g
 -ffile-prefix-map=/build/emacs/src=/usr/src/debug/emacs -flto=auto''

Configured features:
ACL CAIRO DBUS FREETYPE GIF GLIB GMP GNUTLS GPM GSETTINGS HARFBUZZ JPEG
JSON LCMS2 LIBOTF LIBSYSTEMD LIBXML2 M17N_FLT MODULES NATIVE_COMP NOTIFY
INOTIFY PDUMPER PNG RSVG SECCOMP SOUND SQLITE3 THREADS TIFF
TOOLKIT_SCROLL_BARS TREE_SITTER WEBP X11 XDBE XIM XINPUT2 XPM GTK3 ZLIB

Important settings:
  value of $LANG: en_US.UTF-8
  locale-coding-system: utf-8-unix

Major mode: ELisp/d

Minor modes in effect:
  global-git-commit-mode: t
  magit-auto-revert-mode: t
  shell-dirtrack-mode: t
  marginalia-mode: t
  override-global-mode: t
  vertico-mode: t
  which-key-mode: t
  server-mode: t
  global-eldoc-mode: t
  eldoc-mode: t
  show-paren-mode: t
  electric-indent-mode: t
  mouse-wheel-mode: t
  menu-bar-mode: t
  file-name-shadow-mode: t
  global-font-lock-mode: t
  font-lock-mode: t
  blink-cursor-mode: t
  column-number-mode: t
  line-number-mode: t
  transient-mark-mode: t
  auto-composition-mode: t
  auto-encryption-mode: t
  auto-compression-mode: t

Load-path shadows:
/home/surgo/.emacs.d/elpa/transient-20231103.2312/transient hides
/usr/share/emacs/29.1/lisp/transient
/home/surgo/.emacs.d/elpa/seq-2.24/seq hides
/usr/share/emacs/29.1/lisp/emacs-lisp/seq

Features:
(shadow sort mail-extr emacsbug minibuf-eldef thingatpt misearch
multi-isearch cl-print debug backtrace find-func mule-util shortdoc
help-fns radix-tree macros dired-aux cc-styles cc-align cc-engine
cc-vars cc-defs magit-submodule magit-blame magit-stash magit-reflog
magit-bisect magit-push magit-pull magit-fetch magit-clone magit-remote
magit-commit magit-sequence magit-notes magit-worktree magit-tag
magit-merge magit-branch magit-reset magit-files magit-refs magit-status
magit magit-repos magit-apply magit-wip magit-log which-func imenu
magit-diff smerge-mode diff diff-mode git-commit log-edit message
sendmail yank-media puny dired dired-loaddefs rfc822 mml mml-sec epa
derived epg rfc6068 epg-config gnus-util text-property-search time-date
mm-decode mm-bodies mm-encode mail-parse rfc2231 rfc2047 rfc2045 mm-util
ietf-drums mail-prsvr mailabbrev mail-utils gmm-utils mailheader
pcvs-util add-log magit-core magit-autorevert autorevert filenotify
magit-margin magit-transient magit-process with-editor comp comp-cstr
warnings icons rx shell pcomplete comint ansi-osc ring ansi-color
magit-mode transient magit-git magit-base magit-section format-spec
cursor-sensor crm dash marginalia edmacro kmacro use-package-bind-key
bind-key easy-mmode vertico compat diminish which-key cl-extra help-mode
use-package-diminish use-package-core tango-dark-theme server
magit-autoloads pcase git-commit-autoloads magit-section-autoloads
dash-autoloads marginalia-autoloads projectile-autoloads
transient-autoloads vertico-autoloads with-editor-autoloads info
compat-autoloads seq-autoloads package browse-url url url-proxy
url-privacy url-expand url-methods url-history url-cookie
generate-lisp-file url-domsuf url-util mailcap url-handlers url-parse
auth-source cl-seq eieio eieio-core cl-macs password-cache json subr-x
map byte-opt gv bytecomp byte-compile url-vars cl-loaddefs cl-lib rmc
iso-transl tooltip cconv eldoc paren electric uniquify ediff-hook
vc-hooks lisp-float-type elisp-mode mwheel term/x-win x-win
term/common-win x-dnd tool-bar dnd fontset image regexp-opt fringe
tabulated-list replace newcomment text-mode lisp-mode prog-mode register
page tab-bar menu-bar rfn-eshadow isearch easymenu timer select
scroll-bar mouse jit-lock font-lock syntax font-core term/tty-colors
frame minibuffer nadvice seq simple cl-generic indonesian philippine
cham georgian utf-8-lang misc-lang vietnamese tibetan thai tai-viet lao
korean japanese eucjp-ms cp51932 hebrew greek romanian slovak czech
european ethiopic indian cyrillic chinese composite emoji-zwj charscript
charprop case-table epa-hook jka-cmpr-hook help abbrev obarray oclosure
cl-preloaded button loaddefs theme-loaddefs faces cus-face macroexp
files window text-properties overlay sha1 md5 base64 format env
code-pages mule custom widget keymap hashtable-print-readable backquote
threads dbusbind inotify lcms2 dynamic-setting system-font-setting
font-render-setting cairo move-toolbar gtk x-toolkit xinput2 x multi-tty
make-network-process native-compile emacs)

Memory information:
((conses 16 241723 51274)
 (symbols 48 17022 0)
 (strings 32 64370 2962)
 (string-bytes 1 2928754)
 (vectors 16 41856)
 (vector-slots 8 758358 34977)
 (floats 8 161 322)
 (intervals 56 1802 323)
 (buffers 984 17))