It really depends on your defintion of handmade and what 'you' expect from a handmade bat, personally i consider a bat to be handmade if i can specify profile, weight and size and perhaps pick from around 10 clefts - the pressing is down to the batmaker, as is the rest of the operation - so from that list, all of the above in my eyes make hand made bats.
Untill there is a more widely accepted defintion of a handmade cricket bat then it is hard to say which brands do - some people will expect to have a say over pressing, handle shape, density, edge siz etc, some are just happy to trust the batmaker with a rough idea.