EntityStorageException fired when trying to update entities without bundle

Problem/Motivation

I'm occasionally seeing an exception thrown by linkchecker_entity_update. I'm using Menu Item Extras and in some cases the menu items are loaded with an empty bundle. This results in the following exception:

Drupal\Core\Entity\EntityStorageException: Attempt to create a base field bundle override of field id without a bundle in Drupal\Core\Entity\Sql\SqlContentEntityStorage->save() (line 817 of core/lib/Drupal/Core/Entity/Sql/SqlContentEntityStorage.php).

Drupal\Core\Config\Entity\ConfigEntityStorage->doCreate() (Line: 232)
Drupal\Core\Entity\EntityStorageBase->create() (Line: 75)
Drupal\Core\Field\Entity\BaseFieldOverride::createFromBaseFieldDefinition() (Line: 784)
Drupal\Core\Field\BaseFieldDefinition->getConfig() (Line: 135)
Drupal\linkchecker\LinkExtractorService->extractFromField() (Line: 113)
Drupal\linkchecker\LinkExtractorService->extractFromEntity() (Line: 193)
linkchecker_entity_update()

May be related to Database exception: Unknown column 'base.' when using entity types without bundle 🐛 Database exception: Unknown column 'base.' when using entity types without bundle Active

Steps to reproduce

TODO define reproduction steps.

Proposed resolution

Unsure about this one. Skip bundle-less entities? Wouldn't work for Users.

Remaining tasks

Define steps to reproduce, determine course of action.

User interface changes

TODO

API changes

TODO

Data model changes

TODO