Run the following commands to tell Terraform that the repos were created outside the state:
$ doppler run -- terraform import 'module.repository["fem-eci-terraform-github"].github_repository.self' 'fem-eci-terraform-github'
$ doppler run -- terraform import 'module.repository["fem-eci-terraform-tfe"].github_repository.self' 'fem-eci-terraform-tfe'