Custom wp-content path not recognized in custom WordPress install

We’ve moved the wp-content directory to web/app and the plugin seems to confuse the file directory with the web/URL directory.

You can see the folder structure here: https://roots.io/bedrock/

The uploads/ directory is symlinked to a shared directory which sits next to the web root. We use Capistrano to deploy releases and symlink to user data and config files.

For some reason, this breaks the path to images as it includes the full shared file/folder directory path rather than the image URL

Wrong URL:
https://www.prefix.ph/app/shared/web/app/uploads/2019/01/2019-updated-List-of-Mobile-Prefixes.jpg.webp

Right URL:
https://www.prefix.ph/app/uploads/2019/01/2019-updated-List-of-Mobile-Prefixes.jpg.webp

It’s added, ‘shared/web/app’ to the URL between app/ and uploads/ for some reason. Is anyone else experiencing issues with this in their customer WordPress install?