Hi,
It seems that diff.noprefix causes rebase to misplace files that exist in paths that have names similiar to the git diff default prefixes. So a commit that adds /db/somefile will after a rebase place the file into /somefile.
Example test-case below:
mkdir test cd test git init touch x git add x git commit -m x touch z git add z git commit -m z mkdir db touch db/y git add db git commit -m db git config diff.noprefix true git rebase --onto master^^ master^ master ls -R .: x y
expecting to see: ls -R .: db x
./db: y
Regards, Tarmo