diff --git a/scriptmodules/emulators/mupen64plus.sh b/scriptmodules/emulators/mupen64plus.sh
index a05930239f..298a841bf7 100644
--- a/scriptmodules/emulators/mupen64plus.sh
+++ b/scriptmodules/emulators/mupen64plus.sh
@@ -316,6 +316,16 @@ function configure_mupen64plus() {
     local config="$md_conf_root/n64/mupen64plus.cfg"
     local cmd="$md_inst/bin/mupen64plus --configdir $md_conf_root/n64 --datadir $md_conf_root/n64"
 
+    # patch existing mupen64plus config because Gliden64 overwrites user settings if config 
+    # version is wrong 
+    iniConfig " = " "" "$config"
+    # Create GlideN64 section in .cfg
+    if ! grep -q "\[Video-GLideN64\]" "$config"; then
+        echo "[Video-GLideN64]" >> "$config"
+    fi
+    # Settings version. Don't touch it.
+    iniSet "configVersion" "$(cat $md_inst/share/mupen64plus/GLideN64_config_version.ini)"
+
     # if the user has an existing mupen64plus config we back it up, generate a new configuration
     # copy that to rp-dist and put the original config back again. We then make any ini changes
     # on the rp-dist file. This preserves any user configs from modification and allows us to have
@@ -345,7 +355,7 @@ function configure_mupen64plus() {
             echo "[Video-GLideN64]" >> "$config"
         fi
         # Settings version. Don't touch it.
-        iniSet "configVersion" "29"
+        iniSet "configVersion" "$(cat $md_inst/share/mupen64plus/GLideN64_config_version.ini)"
         # Bilinear filtering mode (0=N64 3point, 1=standard)
         iniSet "bilinearMode" "1"
         iniSet "EnableFBEmulation" "True"