This might not be the right area of the forum but since 'Xorg-vesa-lite.tcz' is not your "typical extension" I decided to post it here:
There seems to be some "rogue" settings for the ownership and permissions of the /usr/local/tce.installed directory in the Xorg-vesa-lite.tcz extension:
drwxr-sr-x 2 root root 60 Jan 25 03:55 /usr/local/tce.installed
When loading another extension (e.g. htop.tcz), that does not contain a startup script in tce.installed the following warning can be observed:
touch: /usr/local/tce.installed/htop: Permission denied
The warning itself appears harmless and the extension seem to be installed. But I believe the content of /usr/local/tce.installed is used by several core scripts to ascertain the set of currently loaded extensions. And this information will be wrong as long as the "rogue" settings of /usr/local/tce.installed persist.
Loading another extension that contains a startup script seem to make the warnings disappear again.