Sounds more like someone didn't know to take the three Seat collars out if they lowered the rear stays. Would make sitting on it feel decidedly weird imho. If you properly want to lower it remove the three seat collars at the front.
I've finally - after a month - got my seat in the raised position - the dealer lost my seat collars (They had them in the Top Box when I viewed the bike but some helpful person had cleaned them out when I came to collect the next week

. They ordered literally every single bung from under the seat for me but missed Seat Collar C. Sourced one off Lings and happy as Larry now.
I think that having the seat in upper position is much more comfortable for me. I haven't messed about with the front fork preload adjustment yet, though am considering it (Being a bit lardy).