Cloned repository is dirty

Reproduction steps

Clone remote repository to local folder

var options = new CloneOptions
  {
    CredentialsProvider = (url, user, cred) => new UsernamePasswordCredentials { Username = userName, Password = passWord }
    };
Repository.Clone(_remoteUrl, _localPath, options);

Expected behavior

git status must return nothing to commit, working tree clean

Actual behavior

git status returns

Changes to be committed:
  (use "git restore --staged <file>..." to unstage)
        deleted:    Managers/ashish.reddy-automation-eng.productsem-20191015.yaml
        deleted:    Managers/ashish.reddy-coaching-eng.productsem-20191003.yaml
        deleted:    Managers/ashish.reddy-coaching-eng.productsem-20191015.yaml
        deleted:    Managers/gowtham.ramachandra-coaching-Eng.Manager-20191008.yaml
        deleted:    Managers/gowtham.ramachandra-coaching-Eng.Manager-20191009.yaml
        deleted:    Managers/gowtham.ramachandra-process-improvement-Eng.Manager-20191008.yaml
        deleted:    Managers/radhesh.radhakrishnan-process-improvement-eng.manager-20191011.yaml

Changes not staged for commit:
  (use "git add <file>..." to update what will be committed)
  (use "git restore <file>..." to discard changes in working directory)
        modified:   DataStructures/automation-schema.json
        modified:   DataStructures/coaching-schema.json
        modified:   DataStructures/process-improvement-schema.json

Untracked files:
  (use "git add <file>..." to include in what will be committed)
        _git2_a18992

Version of LibGit2Sharp (release number or SHA1)

0.26.2

Operating system(s) tested; .NET runtime tested

Windows 10 Version 2004 10.0.19041
.Net Core 3.1

Start by reproducing the report with Repository.Clone and the shown CloneOptions on Windows 10 with .NET Core 3.1, using LibGit2Sharp 0.26.2. Inspect the clone result and compare it with git status; done means a fresh clone has no staged, unstaged, or untracked changes.