I'm not saying this is what's happening but based on my own experience as a CentOS admin, it's most likely runaway apache/php processes taking down the server. I've seen this numerous times on CentOS 5. It's frustrating because there's usually not a trace of what happened in the log files. The machine just grinds to a halt due to physical memory and swap being sucked up by apache/php processes. You would think linux memory management or some daemon would jump in and say "hey stop" but it doesn't. It'll let apache grind your system to a halt.
Having said that, to see what's happening you'll need something that can monitor and log resource usage. I like to use a program called atop. Atop is a lot like the top program but it also takes a snapshot of resource usage at defined intervals. It's pretty simple to install.
wget http://www.atcomputing.nl/Tools/atop/packages/atop-1.23.tar.gz
tar -zxvf atop-1.23.tar.gz
cd atop-1.23 && make install
Open /etc/atop/atop.daily with a text editor and change INTERVAL=600 to INTERVAL=60
Run the command /etc/atop/atop.daily from a command prompt to start it. Wait a few minutes and run atop -r /var/log/atop/atop_20091118 with the correct date of course.
Hit the t key to go forward in time and T to go back. Next time your server crashes do this and check the MEM free and SWP free lines. If you have memory problems these will be in red. Also look for numerous httpd lines under CMD. If apache/php is your problem there'll be a bunch of them.
If this is the case, I recommend looking at you're MaxClients setting in httpd.conf. If set too high, apache will gladly eat all of your memory causing your machine to crash. Apache/php can easily eat 40-50MB/process. If you multiply 40mb x MaxClients you'll get a rough idea of how much memory apache can potentially use. MaxClients usually defaults to 150 on CentOS so apache can potentially use 6GB of memory by default. This doesn't include memory your system needs for itself and other processes to run. Try setting it to a more realistic value based on the amount of memory you have like 40 if you have 2G of memory and see if that helps. Also if you have KeepAlive On, set KeepAliveTimeout to a low number like 2 or 3.
In my opinion CentOS's apache/php compilation is a real pos that should never have seen the light of day. It's buggy and crash prone. If you run a serious site, I highly recommend compiling your own version of apache/php or even using one of the newer high performance webservers like lighttpd or nginx with fgci php.
There is no way of setting up self-signed certificates properly, because self-signed certificates have no role in proper SSL communication.
Set up your own CA and you'll be good to go. If your Windows server doesn't already have a built-in CA, there are many documents out there about this. As a starting point, you could use the EasyRSA CA that is included with OpenVPN.
Best Answer
False alarm. I had created my own revocation list with openssl which I was using for client authentication and this had expired.
For anyone who is interested there is some great advice on implementing certificate based access control for your sites at:
http://it.toolbox.com/blogs/securitymonkey/howto-securing-a-website-with-client-ssl-certificates-11500
Just make sure your .crl does not expire ;-)