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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

cmdline.push_back("-Prelease_keystore_file=" + release_keystore); 
				cmdline.push_back("-Prelease_keystore_alias=" + release_username); 
				cmdline.push_back("-Prelease_keystore_password=" + release_password); 
			}
		}
		int result = EditorNode::get_singleton()->execute_and_show_output(TTR("Building Android Project (gradle)"), build_command, cmdline);
		if (result != 0) {
			add_message(EXPORT_MESSAGE_ERROR, TTR("Export"), TTR("Building of Android project failed, check output for the error. Alternatively visit docs.godotengine.org for Android build documentation."));
			return ERR_CANT_CREATE;
		}
		List<String> copy_args;
		String copy_command;
		if (export_format == EXPORT_FORMAT_AAB) {
			copy_command = vformat("copyAndRename%sAab", build_type);
		} else if (export_format == EXPORT_FORMAT_APK) {
			copy_command = vformat("copyAndRename%sApk", build_type);
		}
		copy_args.push_back(copy_command);
		copy_args.push_back("-p"); 
		copy_args.push_back(build_path); 
		String export_filename = p_path.get_file();
		String export_path = p_path.get_base_dir();
		if (export_path.is_relative_path()) {
			export_path = OS::get_singleton()->get_resource_dir().path_join(export_path);
		}
		export_path = ProjectSettings::get_singleton()->globalize_path(export_path).simplify_path();
		copy_args.push_back("-Pexport_path=file:" + export_path);
		copy_args.push_back("-Pexport_filename=" + export_filename);
		print_verbose("Copying Android binary using gradle command: " + String("\n") + build_command + " " + join_list(copy_args, String(" ")));
		int copy_result = EditorNode::get_singleton()->execute_and_show_output(TTR("Moving output"), build_command, copy_args);