Trim over-commented Chunk 3+/4 work

A pass over the install scripts, dev-tools commands, and Hyprland Lua
files that I had stuffed with explain-everything preambles. Most of
those rationales (which files ship where, why hyprctl setenv doesn't
suffice, etc.) belong in commit messages or PR descriptions, not in
code people have to read forever. Kept the few comments that document
genuinely non-obvious behaviour: the keybind-env reason for hl.env in
envs.lua, why the runtime PAM seds stay scripted in
increase-lockout-limit, the chroot/--now distinction in chroot.sh, and
the dev-pkg-test split-install reason.

bin/omarchy-update-system-pkgs

@@ -7,13 +7,9 @@ set -e
 
 echo -e "\e[32m\nUpdate system packages\e[0m"
 
-# Transition --overwrite: the Omarchy 4 package refactor moves files that
-# previous Omarchy installs wrote as unowned files (via install scripts) into
-# the omarchy-settings package. Pacman would otherwise refuse to install
-# omarchy-settings on the first upgrade because the paths "exist in
-# filesystem". Limited to the exact paths the package now owns; remove the
-# corresponding --overwrite entry once the transition release is everyone's
-# baseline.
+# Transition --overwrite: previous script-installed Omarchy wrote these paths
+# as unowned files; pacman would refuse the omarchy-settings upgrade on first
+# encounter. Drop each entry once the transition release is the baseline.
 sudo pacman -Syyu --noconfirm \
   --overwrite '/etc/docker/daemon.json' \
   --overwrite '/etc/gnupg/dirmngr.conf' \