Having the same issue. Did you find a solution?
Changes to my template.conf has not updated for hours.
It feels like all resources are cached more heavily server side recently.
After each change to a .css or .js file I have to force reload by re-saving code injects (by adding/removing white space) and re-saving design > site styles by changing something unimportant. If I don't do that it just keeps loading some serverside cached version of it.
Also un-attaching a domain name from one site and attaching it to another took more than 5 days to go through.