diff --git a/fresh-install/README.md b/fresh-install/README.md
index 8b9b0bc..d55ff65 100644
--- a/fresh-install/README.md
+++ b/fresh-install/README.md
@@ -13,6 +13,8 @@ One package name per line:
 package1
 package2
 package3
+# This is a comment and will be ignored
+# Another comment
 ```
 
 ### aur_packages.txt
@@ -20,8 +22,12 @@ Package name and repository URL separated by space:
 ```
 package-name https://aur.archlinux.org/package-name.git
 another-package https://aur.archlinux.org/another-package.git
+# This is a comment and will be ignored
+# Another comment
 ```
 
+**Note**: Lines starting with anything other than lowercase letters (a-z) or digits (0-9) will be ignored as comments. This includes lines starting with `#`, spaces, uppercase letters, or special characters.
+
 ## Usage
 
 The `main.sh` script will automatically read from these files:
@@ -33,4 +39,20 @@ The `main.sh` script will automatically read from these files:
 To add or remove packages:
 1. Edit the appropriate `.txt` file
 2. For AUR packages, ensure the format is correct (package-name followed by space and URL)
-3. Save the file - the script will automatically pick up changes on next run
+3. You can add comments by starting lines with `#` or any non-alphanumeric character
+4. Save the file - the script will automatically pick up changes on next run
+
+### Comments
+You can add comments to organize your package lists:
+```
+# Essential packages
+git
+vim
+
+# Development tools
+gcc
+make
+
+# Optional packages (commented out)
+# some-package-i-might-want-later
+```
diff --git a/fresh-install/aur_packages.txt b/fresh-install/aur_packages.txt
index 2a0fed2..eefe538 100644
--- a/fresh-install/aur_packages.txt
+++ b/fresh-install/aur_packages.txt
@@ -81,7 +81,6 @@ python-cu2qu https://aur.archlinux.org/python-cu2qu.git
 psautohint https://aur.archlinux.org/psautohint.git
 python-inputs https://aur.archlinux.org/python-inputs.git
 python-steam https://aur.archlinux.org/python-steam.git
-protonup-qt https://aur.archlinux.org/protonup-qt.git
 protonhax-git https://aur.archlinux.org/protonhax-git.git
 nvm-git https://aur.archlinux.org/nvm-git.git
 unityhub https://aur.archlinux.org/unityhub.git
@@ -96,3 +95,4 @@ xpadneo-dkms-git https://aur.archlinux.org/xpadneo-dkms-git.git
 xone-dongle-firmware https://aur.archlinux.org/xone-dongle-firmware.git
 ferdium https://aur.archlinux.org/ferdium.git
 flite1 https://aur.archlinux.org/flite1.git
+protonup https://aur.archlinux.org/protonup-git.git
\ No newline at end of file
diff --git a/fresh-install/main.sh b/fresh-install/main.sh
index 6ecfc56..9a0c848 100755
--- a/fresh-install/main.sh
+++ b/fresh-install/main.sh
@@ -96,7 +96,10 @@ sudo systemctl start reflector.service
 # Read pacman packages from file
 declare -a pacman_packages
 while IFS= read -r line; do
-    [[ -n "$line" ]] && pacman_packages+=("$line")
+    # Skip empty lines and comments (lines not starting with alphanumeric characters)
+    if [[ -n "$line" && "$line" =~ ^[a-z0-9] ]]; then
+        pacman_packages+=("$line")
+    fi
 done < "pacman_packages.txt"
 
 for pkg in "${pacman_packages[@]}"; do
@@ -169,7 +172,10 @@ sudo systemctl start bluetooth.service
 # Read AUR packages from file
 declare -a aur_packages
 while IFS= read -r line; do
-    [[ -n "$line" ]] && aur_packages+=("$line")
+    # Skip empty lines and comments (lines not starting with alphanumeric characters)
+    if [[ -n "$line" && "$line" =~ ^[a-z0-9] ]]; then
+        aur_packages+=("$line")
+    fi
 done < "aur_packages.txt"
 
 for entry in "${aur_packages[@]}"; do
@@ -200,14 +206,9 @@ scripts/setup_media_organizer.sh
 scripts/setup_pc_startup_monitor.sh
 scripts/setup_periodic_system.sh 
 scripts/setup_thorium_startup.sh
+protonup
 yes | sudo pacman -Syuu 
 
-# Installing unreal engine
-cd ~/aur
-if [ ! -d "$(basename https://aur.archlinux.org/unreal-engine.git .git)" ]; then
-    git clone https://aur.archlinux.org/unreal-engine.git
-fi
-
 #cd unreal-engine
 ## gh auth login
 #gh repo clone EpicGames/UnrealEngine -- -b release --single-branch
diff --git a/fresh-install/pacman_packages.txt b/fresh-install/pacman_packages.txt
index 691a491..4cea081 100644
--- a/fresh-install/pacman_packages.txt
+++ b/fresh-install/pacman_packages.txt
@@ -1,33 +1,53 @@
+# duh - using default linux for most compatibility
 linux
+# needed for compiling basically anything 
 distcc
+# probably already installed at this point 
 git
+# bluetooth 
 bluez
 bluez-utils
+# faster make 
 icmake
+# needed for some packages 
 yodl
-texlive-plaingeneric
-docbook-xsl
+# open gl
 glu
+# sound
 pavucontrol-qt
+# faster compiling
 mold
+# faster unpacking 
 zstd
 lz4
 xz
 pigz
 lbzip2
+# needed for some packages 
 doxygen
-graphviz
+# programming languages needed for some packages
 tcl
+# ? Tool for optimizing the compression of PNG files
 pngcrush
+# compilers
 gcc-ada
 gcc-d
+# fonts for i3 ricing
 ttf-dejavu
 noto-fonts
 ttf-font-awesome
+# calculator
 bc
+# for battery - toDo ignore on desktop
 acpi
+# Programming language needed for some pakcages 
 cargo
+# opengl api 
 freeglut
+# Latex 
+texlive-plaingeneric
+docbook-xsl
+graphviz
 texlive-latexextra
 biber
 texlive-bibtexextra
@@ -38,14 +58,23 @@ texlive-pstricks
 texlive-games
 texlive-humanities
 texlive-science
+#  Node.js native addon build tool needed for some packages
 node-gyp
+# For writing uml diagrams - consider removing 
 plantuml
+# dependency hell injector
 npm
+# generates man pages from markdown - consider removing 
 ruby-ronn
+# for GO programming language 
 go-tools
+# ? Posssibly required by some packages - consider removing 
 asciidoctor
+# manuals
 man-db
+# git for large files like LLM 
 git-lfs
+# 
 nodejs
 electron
 yarn
@@ -250,5 +279,4 @@ gl2ps
 twolame
 yasm
 a52dec
-libtremor
 deluge
\ No newline at end of file