The problem described in the issue Alfred 3 Lock is still happening to me several times a week (and some times multiple times a day).
Upon using Alfred to Lock the Macbook it shows the login screen, but instead of allowing Touch ID login, it displays the message "Your password is required to enable Touch ID".
When I enter my password, the machine logs in but then has to restart all the apps previously running (such as after a reboot), which allows for some irritating issues concerning the development environment I'm running on the machine (related to having rebooted / restarted the user session, not directly related to Alfred).
I'm currently running Alfred 3.1.1 [806], and macOS Sierra 10.12.4 Beta (16E175b) on the Macbook Pro (15-inch, 2016).
For now I'll try to start using screensaver instead, but I'm hoping you might be able to look at this to try to find a solution allowing Lock to work as it used to before.
