Howdy,
Every once in awhile, we run into a really strange, bizarre, issue… one that we think should never ever be able to happen.
And we troubleshoot for a bit, discovering that the issue is occurring on an OpenVZ-based VPS, with the user_beancounters showing RAM or network resource failures.
That may be what’s going on here as well, unfortunately
Your user_beancounters file is showing that 98,883 requests for RAM were made, but denied… and that sort of issue can cause some really strange behavior.
To solve that, you could ask your provider for more resources.
Or, you could try disabling some services on your system, so that less are being launched at boot time… it’s possible that would help.
You may also want to disable any Apache modules that you don’t need… that could help too. There’s some thoughts here on running Virtualmin on low-memory systems:
http://www.virtualmin.com/documentation/system/low-memory
The only thing that has me scratching my head is that usually these issues occur after some time of the server being online, it’s rare that they occur only during bootup.
So, just to make sure we’re not overlooking another kind of issue… what is that domain’s PHP Execution Mode set to? You can determine that in Server Configuration -> Website Options. If it’s set to FCGID, you may want to give CGI a try. Or if it’s CGI, try FCGID, and see if that makes a difference.
-Eric