[HELP] Watch Folders and CLI help?

[Selur]

Does anyone here have any current instructions on how to set up watch folders in Hybrid apart from creating the .ini file, or is that still the way to go?

It's still the way to go. There hasn't been any changes on how you setup the monitoring. (probably because - afaik - I'm one of the only users which use it from time to time)
The usage described in the linked thread is the only way how it works atm. .
As a side note: When handling lots of files, enabling 'Jobs->Misc->Delete jobs when finished' isn't a bad idea.

Is it possible just to copy the output hybrid provides at the bottom of the screen with a few tweaks to just run it via command line call?

Not following you there. No clue what 'the output hybrid provides at the bottom of the screen' refers to.
What you could do is start a program or script whenever Hybrid finishes a file or the complete 'Job Queue'. (Jobs->Misc->On queue finished / On job finished).
-> if you describe in more details what you plan to do I might be able to either tell you how Hybrid can do it or may be even add an option for it.

Cu Selur