Just so it's super clear, you definitely keep anything from that run.
Functionally what's happening here is that we start the load back to Ramsgate and then the game disconnects because it sees there is a new version of the game.
We do it this way so that any players who are on their hunts can finish them and disconnect afterwards rather than getting booted mid-hunt or something like that.
We always communicate the date and time of the patches at least a day in advance through Facebook/Twitter/Reddit/etc and generally try to keep them consistent but that being said, we are working to figure out a way to source that information in the game a bit better.
TL;DR you keep your stuff.