The majority of these communities were cleaned up by @[email protected] tonight but if you spot any more you can DM him or also raise the issue on the Matrix chat that we have here.
We're also working on implementing rate-limiting on our instance so these changes should make sh.itjust.works much less attractive to spammers.
A lot of bots were spamming the instance which was causing an IO bottleneck, and thus timeout issues. We're looking into solutions to limit their impact, such as rate-limiting users. We're trying to do it in such a way that it doesn't impact regular users which is why it's taking a bit longer.