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***Bugsquad note:** This issue has been confirmed several times already. No need to confirm it further.*

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### Godot version

v4.0.2.stable.official [7a0977ce2]

### System information

Ubuntu 22.04

### Issue description

I followed this tutorial
https://docs.godotengine.org/en/stable/tutorials/export/android_custom_build.html#doc-android-custom-build.

I want to create Android launcher app to do this i added following code to AndroidManifest.xml in Android Studio.
`<category android:name="android.intent.category.HOME" />
<category android:name="android.intent.category.DEFAULT" />`

But when I export APK my modifications are removed from AndroidManifest.xml.


### Steps to reproduce

Followed this tutorial
https://docs.godotengine.org/en/stable/tutorials/export/android_custom_build.html#doc-android-custom-build.

then open android project in Android studio and edit AndroidManifest.xml.

### Minimal reproduction project

N/A

#include "export_plugin.h"
#include "gradle_export_util.h"
#include "logo_svg.gen.h"
#include "run_icon_svg.gen.h"
#include "core/config/project_settings.h"
#include "core/io/dir_access.h"
#include "core/io/file_access.h"
#include "core/io/image_loader.h"
#include "core/io/json.h"
#include "core/io/marshalls.h"
#include "core/version.h"
#include "drivers/png/png_driver_common.h"
#include "editor/editor_log.h"
#include "editor/editor_node.h"
#include "editor/editor_paths.h"
#include "editor/editor_scale.h"
#include "editor/editor_settings.h"
#include "main/splash.gen.h"
#include "modules/modules_enabled.gen.h" 
#ifdef MODULE_SVG_ENABLED
#include "modules/svg/image_loader_svg.h"
#endif
#include <string.h>
static const char *android_perms[] = {
	"ACCESS_CHECKIN_PROPERTIES",
	"ACCESS_COARSE_LOCATION",
	"ACCESS_FINE_LOCATION",
	"ACCESS_LOCATION_EXTRA_COMMANDS",