Pathologic was missing because of a .git folder inside.

[yaffs-website] / web / modules / contrib / entity_embed / config / optional / embed.button.node.yml

langcode: en
status: true
dependencies:
  module:
    - entity_embed
    - node
label: Node
id: node
type_id: entity
type_settings:
  entity_type: node
  bundles: {  }
  display_plugins: {  }
icon_uuid: null