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I believe you can reply locally on your instance to dead communities, but that data would never be replicated to other instances. The fediverse isn't really a mesh network, more like a hub and spoke on a per community level.
Yeah, pretty sure this is it.
If I understand it, the communities are stored on the instance and when other instances interact they call the home instance to create a localized copy updated with each interaction. When things are deleted, they're deleted first on the home instance and whenever the call goes through to update the interacting instance. If an entire instance goes under then updates from the home instance never get called, and no new interactions are hosted on the home instance, so it's as if the link between interacting instances is broken.
This could probably end up with a lot of fragmented instance interactions taking up space on connected instances after a while, but at least it isn't any worse than just regular increased activity.