I just restarted my server after the Zone Manager update, and now none of the Zones are working. 
Zone Domes said found 15 Invalid zones. 
ZoneManager shows all the locations in ZoneManager data still, but now I see anew file Zone_data that is empty.

You can copy part of the contents of the old ZoneManager.json data file into this new file in the data/ZoneManager folder.  Run it through a validator to make sure.  This migration was not managed afaict.

OLD:

{ "ZoneDefinitions": [ { "Name": "MyZone1...​

NEW:

{ "definitions": [ { "Name": "MyZone1",...