I think I may have cracked it actually!
An oversight on my part! the tk-multi-lauchapp.yml file had some settings for the hook_before_register_command and hook_app_launch which were pointing to files that don’t actually exist on this config.
It’s a bit of a dumb thing on my part to miss that, although maybe for the future it would be great if SG could report that back somehow 
Thanks for the help anyway!!