On my Mac (Mojave 10.14.6), I had disabled the indexing and git status line, but still got an enormous number of scan: ...
lines and CPU usage, even when none of the open files referenced a git repo.
I eventually shutdown ST3 (build 3207 BTW), ran rm "${HOME}/Library/Application Support/Sublime Text 3/Local/*.sublime_session"
.
On restarting the problem has gone away. I suspect that ST3 crashed at some point and left behind references to the .git repos that caused the problem.