The problem turned out to be that wp-config was infected with some sort of code. Typical of what you see at the top of infected .php files.
I have cxs running on the server and it was, quite rightly, detecting the malicious (I assume) code and quarantining the file.
When I restored the file, because I didn’t look at the content, I was restoring an infected file each time and cxs was doing its job.
It was pretty frustrating trying to work it out, something twigged for me last night. Hope this helps someone else.
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