I have occasional episodes of unresponsiveness from my sites/ VPS. I've looked at my VPS container's stats and everything appears normal - RAM usage is about 50%, CPU at 5%, HD space use at 5% and the sites are all low-traffic.
Sometimes, my VEPortal control panel is slow to respond or just times out - just like my sites.
Judging by my resource usage, I don't think the server is being overburdened.
Is the system running dynamic content? If so, does any parts of the script rely on outside calls? Do you see any processes hanging (php processes) which may indicate an issue? I would also use strace to identify why a process would be hanging.
Good luck and please feel free to reply and the community will help :-)
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Yes, it runs dynamic content (I couldn't tell you if any part of the scripts rely on outside calls), but two of my live sites run cached content, whilst the rest aren't live. At this time of day, I wouldn't expect anybody else to be on the sites accessing the content (all sites have around 30 visitors per day in total).