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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

const int CHUNK_STRINGS = 0x001C0001;
	
	const int CHUNK_XML_END_TAG = 0x00100103;
	
	const int CHUNK_XML_START_TAG = 0x00100102;
	
	const int UTF8_FLAG = 0x00000100;
	Vector<String> string_table;
	uint32_t ofs = 8;
	uint32_t string_count = 0;
	uint32_t string_flags = 0;
	uint32_t string_data_offset = 0;
	uint32_t string_table_begins = 0;
	uint32_t string_table_ends = 0;
	Vector<uint8_t> stable_extra;
	String version_name = p_preset->get("version/name");
	int version_code = p_preset->get("version/code");
	String package_name = p_preset->get("package/unique_name");
	const int screen_orientation =