That debug log is very strange. It stops just where the driver is to update the collections. My debug log is 65000 lines long. Yours is 174 lines long. Our two logs more-or-less agree to the point where your's stops.
- Did you let all the jobs finish before you ejected the Kobo? The number of running jobs is displayed on the lower right corner of calibre's window. These jobs can take some time to run.
- I see you are using the KoboTouchExtended driver. What happens if you use the base driver?
- I also see you are using Kobo Utilities. You can easily switch between the drivers by going to Kobo Utilities / Driver / Switch between main and extended driver. To be safe you should restart calibre after you change the driver. Once you have done that, please verify that the configuration of the main driver is still what you want.
- Before reconnecting the Kobo to calibre, please power it off (not sleep) then on. For my Libra 2 I do that by pushing the power button for several seconds until the screen says "Powered off". I then press the power button again until the device starts to reboot.
- Once you have changed the driver, and done the power off/on, reconnect the device to calibre in debug mode. Send the new debug log. Also let us know if the behavior changes (it works).