Shortwave aims to keep your Shortwave and Gmail inboxes in sync. One way they previously drifted out of sync was if you had Shortwave configured to ignore Gmail "skip inbox" filters. This setting no longer exists, meaning threads that skip your Gmail inbox due to a filter will now skip your inbox in Shortwave as well. You can still find these threads via search.
If you want these threads to go to your Shortwave inbox, you must edit or delete your filters in your Gmail's filter settings to no longer skip your inbox.
Frustrated by this change and want to explain your use case that no longer works as well? Share it with our team at firstname.lastname@example.org.