Something (presumably update.js) clobbered modopts.d

So, I had three files in my ctrl/modopts.d directory, included via the standard !include modopts.d/*.ini line in modopts.ini, but now when I look, those files have been merged into modopts.ini, and the include disabled:

; !include modopts.d/*.ini - 3 matches found
; modopts.d/newuser.ini
[newuser]