Symfony version(s) affected: 5.3

Description
In a standalone console application, one of the command defines an option with a shorcut "e".
With the runtime component, the command fails with the error message
An option with shortcut "e" already exists.

How to reproduce
Here a minimum code to reproduce
https://gist.github.com/JakeFr/8d3641ac2e7043dc3eba2a497da65494
Application and included commands work fine
./test.php
./test.php list
./test.php help
but the command returns the error
./test.php test
./test.php test -e
./test.php help test

Possible Solution
It looks related to
https://github.com/symfony/symfony/blob/5.4/src/Symfony/Component/Runtime/Runner/Symfony/ConsoleApplicationRunner.php#L48
This test doesn't detect the option