Hello, I believe I’ve found a bug in Git. It seems that (1) round-tripping through fast-export/fast-import a repository (2) that contains a commit that changes a file to a directory (3) deletes the contents of that directory from the repository. Thank you for filling out a Git bug report! Please answer the following questions to help us understand your issue. What did you do before the bug happened? (Steps to reproduce your issue) Run this shell script: ~~~~ #!/bin/bash set -ex mkdir -p /tmp/weirdal cd /tmp/weirdal git --version # init repo rm -Rf wd mkdir wd cd wd git init -b main # first commit - foo is a file touch foo git add -A git commit -m 'file' # second commit - foo is a directory rm foo mkdir foo touch foo/bar git add -A git commit -m 'directory' # the contents of foo are in the working dir and the repo git status ls -lR git ls-tree --name-only -r HEAD # import/export repository (add --full-tree to work around bug) git fast-export --no-data -- --all > ../export cat ../export git fast-import --force --quiet < ../export # bug: foo is still in the WD but not the repo; should still be both git status ls -lR git ls-tree --name-only -r HEAD #git fast-export --no-data -- --all | diff -u --text ../export - || true ~~~~ What did you expect to happen? (Expected behavior) Repo should be unchanged, i.e.: + git status On branch main nothing to commit, working tree clean What happened instead? (Actual behavior) Git thinks foo/bar has been staged: + git status On branch main Changes to be committed: (use "git restore --staged <file>..." to unstage) new file: foo/bar What's different between what you expected and what actually happened? File foo/bar is staged when it should be unchanged. Anything else you want to add: This also happens in 2.38.1 built from source. The bad behavior can be worked around with “--full-tree” on fast-export, but the real repo where I want to do this is pretty large, so I’d prefer not to. Note the “git fast-export” output: commit refs/heads/main mark :2 author Reid Priedhorsky <reidpr@xxxxxxxx> 1679330805 -0600 committer Reid Priedhorsky <reidpr@xxxxxxxx> 1679330805 -0600 data 10 directory from :1 M 100644 e69de29bb2d1d6434b8b29ae775ad8c2e48c5391 foo/bar D foo It looks to me like the “M ... foo/bar” is being processed before “D foo” when it should happen in the opposite order. Please review the rest of the bug report below. You can delete any lines you don't wish to share. [System Info] git version: git version 2.40.0.71.g950264636c cpu: x86_64 built from commit: 950264636c68591989456e3ba0a5442f93152c1a sizeof-long: 8 sizeof-size_t: 8 shell-path: /bin/sh uname: Linux 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) x86_64 compiler info: gnuc: 10.2 libc info: glibc: 2.31 $SHELL (typically, interactive shell): /bin/bash [Enabled Hooks] Thanks, Reid — he/his