Bizarre-My saved changes keep disappearing

I have separate domains in a folder, a system that has worked for me for over a year. Yesterday I did work on a school support site and a new school site for my district. Both are (site name) Domain 2.xsites 2.
When I reopened the sites, any changes I made, about 3 hours of work, weren't there. I recreated the changes in the evening, and after saving, reopened the domains and made sure the changes "stuck." They opened with the changes I had made.
Today I got up and the changes were gone. Even stranger, I had published one of them and all the changes show up on the web, but the domain shows the pages I changed in red, as though never saved or published.
I used Time Machine and Back in Time to go back to earlier versions, with no luck. I'm totally baffled. Any advice, as I can't keep spending hours redoing a site that reverts back.

Curiously, the following worked. I moved my folder, iWeb Domains, with 4 domains inside (including the two that didn't save changes) to my Dropbox folder. The interesting thing is that it copied to DB instead of moving, since they're on the same volume. I tested launching from DB and the changes I had made now showed. Tested from the folder that had been living in the Documents folder, and it didn't. Somehow I must have had multiple instances, although the iWeb Domains folder wasn't an alias. I know this is confusing.
Bottom line is that when I launch iWeb with one of the domains in the DB folder, it works fine. As to the naming conventions, you're probably correct. I think some of the funky naming convention came when I upgraded a site to iWeb 3. I tried duplicating a site and tested with both:
Rock Springs Domain 2.xsites2
and your convention
Rock Springs.xsites2
They both launched, but I will rename the others. Thanks.

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