Hi Mike,
I know this behaviour as well from doing any configuration in the web config (e.g. archive configuration).
My "solution" is the same as yours, I have to remember to save constantly when I am doing any configuration, to avoid doing it twice...
From my point of view, I can confirm that it is related to complex configuration changes, and not to any time out.
I hope, this information is helpful for the DocuWare Support Team.
Best regards,
Frank