Hi
I think u should not focus on the reason for refusal of visa but you should focus on the reason for nomination.
Nomination is primary. Like you mentioned the profits have gone triple under your management. You need to provide them evidence of last three years comparison of profits chart. You also need to prepare a clear organisation chart where it can be seen how many staff are you managing ?
Also if the cafe has three partners. It means you have three bosses. Immigration wants to know why 3 owners need a manager on top ? You need to explain what other businesses they are managing and they can't work in these cafe.
Lots of supporting documents needed payslips, other business documents for all the other partners like BAS etc
Once you get the nomination then you can prepare about visa reasons. I hope this helps