Cli: npm ci does not run prepare script for Git modules (version 6.11.*)

Confirming this is still an issue in 6.12.0 as well.

I have the exact same issue when using the node:12.13.0 Docker container (in CI), which runs 6.12.0. Same issue even after updating its npm version to 6.14.3 before running npm ci.

However, somehow, npm ci in 6.14.3 behaves as intended on my development machine (a mac)

I have the same issue when using the node:12.13.0 on the docker container (in gitlab-runner CI) on both commands: npm install and npm ci.

I noticed that npm ignores files from .gitignore when there is no .npmignore file.
Creating an empty .npmignore file helps to solve problems locally (on a macOS system).

The strangest thing is that when I remove the node_modules directory and run the following command locally, it works.

$ docker run --rm --name node-test -v "$PWD":/usr/src/app -w /usr/src/app node:12.13.0 \
             sh -c 'npm cache clean --force && npm ci'

I have problems only when trying to run the following command on the CI runner (that uses node:12.13.0 docker image).