diff --git a/Runtimes/NET/BepisLoader/LinuxBootstrap.sh b/Runtimes/NET/BepisLoader/LinuxBootstrap.sh
old mode 100644
new mode 100755
index 36fa5031..569db132
--- a/Runtimes/NET/BepisLoader/LinuxBootstrap.sh
+++ b/Runtimes/NET/BepisLoader/LinuxBootstrap.sh
@@ -58,15 +58,6 @@ RENDERER_SCRIPT="Renderer/Renderite.Renderer.sh"
 # 	# "$*" 2>/dev/null
 # }
 
-# Overload the 'dotnet' command so that it calls the version which was
-# downloaded by the script rather than potentially call (or fail to call)
-# the system's main dotnet runtime.
-
-dotnet()
-{
-	"$DOTNET_EXECUTABLE" "$@"
-}
-
 main()
 {
 	# Make sure the dotnet installer is executable, grab the .NET 9.0 runtime and
@@ -110,10 +101,56 @@ main()
 		EOF
 	fi
 
+	echo "Parsing hookfxr parameters"
+	HOOKFXR_STATUS=""
+	TARGET_ASSEMBLY=""
+
+	# CLI arg takes priority
+	for arg in "$@" ; do
+		if [ "$arg" = "--hookfxr-enable" ] ; then
+			HOOKFXR_STATUS="ENABLED"
+			echo "hookfxr is enabled by CLI"
+		fi
+		if [ "$arg" = "--hookfxr-disable" ] ; then
+			HOOKFXR_STATUS="DISABLED"
+			echo "hookfxr is disabled by CLI"
+		fi
+		TARGET_ARG=${arg#"--hookfxr-target="}
+		if [ ! "$arg" = "$TARGET_ARG" ] ; then
+			TARGET_ASSEMBLY="$TARGET_ARG"
+			echo "hookfxr target forced to $TARGET_ASSEMBLY by CLI"
+		fi
+	done
+
+	# If not specified in CLI args, check INI
+	if [ -z $HOOKFXR_STATUS ] ; then
+		if grep -q "enable=true" hookfxr.ini ; then
+			HOOKFXR_STATUS="ENABLED"
+			echo "hookfxr is enabled by INI"
+		fi
+		if grep -q "enable=false" hookfxr.ini ; then
+			HOOKFXR_STATUS="DISABLED"
+			echo "hookfxr is disabled by INI"
+		fi		
+	fi
+	
+	ENTRY_POINT="Renderite.Host.dll"
+
+	# If hookfxr is enabled, change the entry point
+	if [ "$HOOKFXR_STATUS" = "ENABLED" ] ; then
+		# Only read from INI if it was not already found in CLI
+		if [ -z $TARGET_ASSEMBLY ]; then
+			TARGET_ASSEMBLY=$(sed -n "s/^\s*target_assembly=\(.*\S\)\s*$/\1/p" hookfxr.ini)
+		fi
+
+		if [ -n $TARGET_ASSEMBLY ]; then
+			ENTRY_POINT="$TARGET_ASSEMBLY"
+		fi
+	fi
+	echo "Entry point: $ENTRY_POINT"
 
 	# ~ Launch Resonite! :) ~
-
-	dotnet BepisLoader.dll "$@"
+	exec "$DOTNET_EXECUTABLE" "$ENTRY_POINT" "$@"
 }
 
 main "$@"
diff --git a/Runtimes/NET/BepisLoader/README.md b/Runtimes/NET/BepisLoader/README.md
index 9d736989..58fa109f 100644
--- a/Runtimes/NET/BepisLoader/README.md
+++ b/Runtimes/NET/BepisLoader/README.md
@@ -5,15 +5,23 @@ A mod loader which allows using BepInEx with [Resonite](https://resonite.com/).
 
 ## Installation (Manual)
 
-1. Download the latest release ZIP file (e.g., `ResoniteModding-BepisLoader-1.3.1.zip`) from [Thunderstore](https://thunderstore.io/c/resonite/p/ResoniteModding/BepisLoader/).
+1. Download the latest release ZIP file (e.g., `ResoniteModding-BepisLoader-1.4.1.zip`) from [Thunderstore](https://thunderstore.io/c/resonite/p/ResoniteModding/BepisLoader/).
 2. Extract the contents of the `BepInExPack` folder from the ZIP into your Resonite installation directory:
    - **Windows Default:** `C:\Program Files (x86)\Steam\steamapps\common\Resonite\`
    - **Linux Default:** `~/.steam/steam/steamapps/common/Resonite/`
 3. **Linux Users Only:** The included `LinuxBootstrap.sh` file needs to be used instead of the default one:
    - The package includes a modified `LinuxBootstrap.sh` that launches `BepisLoader.dll` instead of `Renderite.Host.dll`
-   - **Important:** Resonite updates could replace this file, breaking the mod loader. If this happens, you'll need to manually replace `LinuxBootstrap.sh` with the one from the BepisLoader package
-4. Start the game normally.
-5. If you want to verify that the mod loader is working, check the `BepInEx\LogOutput.log` file after launching the game.
+   - **Important:** Resonite updates could replace this file, breaking the mod loader. If this happens, you'll need to manually replace `LinuxBootstrap.sh` with the one from the BepisLoader package.
+     - Some mod managers - including Gale - will copy the script from their managed profile folder to the Resonite install directory on every game launch. In which case, you do not need to replace it manually.
+4. Enable the modded entry point by replacing `enable=false` with `enable=true` in the file `hookfxr.ini`
+   - Alternatively, add `--hookfxr-enable` to your launch arguments. 
+5. Start the game normally.
+6. If you want to verify that the mod loader is working, check the `BepInEx\LogOutput.log` file after launching the game.
+
+### Disabling temporarily
+1. Set `enable=false` in the file `hookfxr.ini`
+   - Alternatively, add `--hookfxr-disable` to your launch arguments.
+2. If you had added `--hookfxr-enable` to your launch arguments before, you must remove it. 
 
 ### Uninstallation
 
@@ -24,15 +32,13 @@ A mod loader which allows using BepInEx with [Resonite](https://resonite.com/).
    - **Common Files:**
      - `hookfxr.ini`
      - All `BepisLoader*` files
-   - **Linux Only:**
-     - Restore the original `LinuxBootstrap.sh` (or verify game files through Steam)
 2. Delete the `BepInEx` folder.
 
 ## Package Contents
 
 The BepisLoader package contains:
 - **Windows Entry Point:** `hostfxr.dll` and `hookfxr.ini` for hooking into the .NET runtime
-- **Linux Entry Point:** Modified `LinuxBootstrap.sh` that launches BepisLoader
+- **Linux Entry Point:** Modified `LinuxBootstrap.sh` that launches BepisLoader if hookfxr is enabled (in `hookfxr.ini` or with launch options)
 - **BepisLoader:** Core loader files (`BepisLoader.dll`, etc.)
 - **BepInEx:** The BepInEx framework and all required dependencies