@tgodfrey I can unzip it as expected. Please try downloading the file again: http://b2evolution.net/downloads/6-9-6

I have just downloaded the file for the fourth time, uploaded to the site server using cPanel file manager upload, and extracted the zip file. I get the same result as before: all directories present when unzipped on my PC, only some when the same zip file is extracted on the server. This is the result I first got using the auto-upgrade function - it loaded the zip file to the server, and when I went to the unzip stage, it threw an error - '/conf/_application.php does not exist' - and it didn't, because the file extraction did not work fully.

It is not a matter of hidden files on the server, as the auto-upgrade process did not find the file, or the directory.

I have now uploaded the same zip file to another server, and it unzips Ok. Think I'll go and have a drink. Thanks for your reply.

Next day. Um, problem solved. Disc full. Increase space, and everything is as it should be. Who would have thought?

Yeap! On earlier an earlier occasion I had the same problem with available space using the auto upgrade as it backed-up all the old versions.