I recall reading recently a case where the tenant took the agency to the tribunal over the additional charge of $1.95 & won.
Yep, that's right. I think it was Victorian and between the tenant and RW. Edit - http://www.rpmonline.com.au/news/11701-tenant-takes-landlord-to-court-over-1-65
Charges equalled $13 odd over a number of months.
In Victoria the tenant cannot be forced to pay their rent in a specific way. Which is why either the landlord or agency needs to provide a free payment method, and if any charges are associated with this they must be paid by the agency or landlord.