I've had W3 total cache configured in some instances for a while, but my MU site was slowww. So today, I upgraded WP, the plugin and configured everything. Something broke my MU installation, because all my sites except for the first/main one are gone, returning a 404 error. I disabled W3 Total Cache and no dice.
Anyone encountered this/have any insight for possible fixes? Sadly my host hasn't been making regular backups so I'd be losing about 3 months of work.
NB: When I say everything, I mean DB cache, object cache, cloudflare, etc. The plugin was installed via network install.
Also, note that this issue could have something to do with the WP upgrade as well, as after the upgrade I had to manually change sub-directories to get to my sites - the drop-down was listing and linking to only the main site in multiple listings.