I notice the first would allow someone from Burnley wanting to get to central Manchester at around 08:30 to catch a train from Burnley Manchester Rd at 07:38, while doing the same commute on bus would require you to catch a bus at 07:07. So while the Witchway buses are nice and run more frequently, I think getting up half an hour later could appeal to some people.
Assuming it take them the same time to get to the Bus Station or Machester Road station, yes.
The via Todmorden fares look a lot more attractive than the previous fares. The off-peak duo even beats the Witch Way's discount for 2 people by 30p (though the Witch Way has no evening restrictions).