If it was me I would go into the Panel or a Command line and look at the access logs, Kernel, etc... The rattling sounds like hardware.
The only thing I can thing of that would rattle would be a HDD or FAN. I doubt it was the fan because after it rebooted everything was fine.
My thoughts are the HDD is failing. Try looking at the actual Logs from the Server-Manager Panel and maybe post some here.