On 17 Nov 2018, at 16:42, Rob McBroom <mailinglist0@skurfer.com> wrote:

When this happens, another way to get the files to reappear is to select one of them with ⌘T. This assumes you know the name of one of the missing files, and you have “Keep current document selected” enabled, but it works.

Not quite. Some of the git commands will not work. If one of those files that wasn’t visible before is selected and you run the “Show Uncommitted Changes” command it will report that nothing has changed, even though it has.