I’ve created a second machine but have stopped it (with flyctl machine stop), so the warning’s gone, and while they were both running temporarily I didn’t see duplicate logs.
I don’t have any configuration to say just always run 1 of these. My understanding of the min_machines_running and similar options is that they’re all related to services, which this doesn’t have.
I would personally say the best practice is to leave the machines running all the time, and have 1 in each region you deploy your apps to.
I’m pretty sure the warning works by simply counting the number of machines, not checking whether the machines are running or not.
As you aluded to, the autostop/autostart features don’t work without a services section in your config and that’s not applicable to this app. This means that your stopped machine will never be automatically started and your running machine will never be automatically stopped.