@gerbenzaagsma @Vero I also had this issue - I edited the calls.scpt file to update the hard ref
from:
var DATA_PATH = $.getenv('HOME') + '/Library/Application Support/Alfred 3/Workflow Data/' + WORKFLOW_NAME
to:
var DATA_PATH = $.getenv('HOME') + '/Library/Application Support/Alfred/Workflow Data/' + WORKFLOW_NAME
did d:choosedoc once more, and then all worked fine