diff --git a/apply_patches.sh b/apply_patches.sh
index 53b35b6..8d581f9 100755
--- a/apply_patches.sh
+++ b/apply_patches.sh
@@ -4,22 +4,37 @@ set -e
 
 mydir="$(dirname "$(realpath "$0")")"
 
+print_section() {
+    local msg="$1"
+    echo "##############################################################"
+    echo "# $msg"
+    echo "##############################################################"
+}
+
 pushd "$mydir" > /dev/null
 
 source ./merge_helpers.sh
 
 # Apply our patches
+print_section "Apply patches to matrix-js-sdk"
 apply_patches matrix-js-sdk
+print_section "Apply patches to matrix-react-sdk"
 apply_patches matrix-react-sdk
+#print_section "Apply patches to element-web"
 #apply_patches element-web
+print_section "Apply patches to element-desktop"
 apply_patches element-desktop
 
 # Automatic adjustments
+#print_section "Apply i18n"
 #automatic_i18n_adjustment
+print_section "Apply automatic package adjustments"
 automatic_packagejson_adjustment
 
 # Automatic theme and icon update
+print_section "Apply automatic theme updates"
 ./theme.sh y
-./graphics/icon_gen.sh
+print_section "Generate icons"
+./graphics/icon_gen.sh y
 
 popd > /dev/null
diff --git a/graphics/icon_gen.sh b/graphics/icon_gen.sh
index 6bd1236..b7fdf4f 100755
--- a/graphics/icon_gen.sh
+++ b/graphics/icon_gen.sh
@@ -1,6 +1,16 @@
 #!/bin/bash
 
+set -e
+
 mydir="$(dirname "$(realpath "$0")")"
+automatic_commit="$1"
+
+SCHILDI_ROOT="$mydir/.."
+source "$SCHILDI_ROOT/merge_helpers.sh"
+
+if [[ "$automatic_commit" == [Yy]* ]]; then
+    forelement_repos check_clean_git
+fi
 
 
 export_rect() {
@@ -17,7 +27,7 @@ export_square() {
     export_rect "$1" "$size" "$in" "$out"
 }
 
-repo_dir="$mydir/../element-web"
+repo_dir="$SCHILDI_ROOT/element-web"
 base_out="$repo_dir/res/vector-icons"
 
 for i in 1024 120 150 152 180 24 300 44 48 50 76 88; do
@@ -45,7 +55,7 @@ for f in "$base_out"/*.png; do
 done
 
 
-repo_dir="$mydir/../element-desktop"
+repo_dir="$SCHILDI_ROOT/element-desktop"
 base_out="$repo_dir/res/img"
 
 export_square 256 "$mydir/ic_launcher_sc.svg" "$base_out/element.png"
@@ -77,3 +87,8 @@ rm "$base_out/icons/1024x1024.png"
 for f in "$base_out/icons"/*.png; do
     pngcrush -ow "$f"
 done
+
+
+if [[ "$automatic_commit" == [Yy]* ]]; then
+    forelement_repos commit_if_dirty "Automatic icon update"
+fi
diff --git a/merge_helpers.sh b/merge_helpers.sh
index 2e36b6f..d80ff9e 100755
--- a/merge_helpers.sh
+++ b/merge_helpers.sh
@@ -1,6 +1,8 @@
 #!/bin/bash
 
-SCHILDI_ROOT="$(dirname "$(realpath "$0")")"
+if [ -z "$SCHILDI_ROOT" ]; then
+    SCHILDI_ROOT="$(dirname "$(realpath "$0")")"
+fi
 
 branch=${BRANCH:-"lite"}
 
@@ -290,3 +292,10 @@ on_apply_patch_fail() {
     echo "----------------------------------"
     read -p "Press enter after committing resolved conflicts: "
 }
+
+commit_if_dirty() {
+    local message="$1"
+    # see: https://devops.stackexchange.com/a/5443
+    git add -A
+    git diff-index --quiet HEAD || git commit -m "$message"
+}
diff --git a/merge_upstream.sh b/merge_upstream.sh
index 2e7d31e..79b3f5b 100755
--- a/merge_upstream.sh
+++ b/merge_upstream.sh
@@ -52,6 +52,7 @@ popd > /dev/null
 # Refresh environment
 make clean
 make setup
+forall_repos commit_if_dirty "Automatic setup commit"
 
 ./apply_patches.sh
 
diff --git a/theme.sh b/theme.sh
index ef664fd..8aee68d 100755
--- a/theme.sh
+++ b/theme.sh
@@ -172,10 +172,10 @@ for f in res/**/*.svg; do
     replace_colors "$f"
 done
 
-popd > /dev/null
+if [[ "$automatic_commit" == [Yy]* ]]; then
+    # see: https://devops.stackexchange.com/a/5443
+    git add -A
+    git diff-index --quiet HEAD || git commit -m "Automatic theme update"
+fi
 
-#if [[ "$automatic_commit" == [Yy]* ]]; then
-#    # see: https://devops.stackexchange.com/a/5443
-#    git add -A
-#    git diff-index --quiet HEAD || git commit -m "Automatic theme update"
-#fi
+popd > /dev/null