Shop sections are nice, but they are currently just a speed bump. Given time all shops will have all sections. I would really like to see some mechanics that make specialisation viable like
Check what I've already planned under maintenance:
http://shopkeeper.lemuria.org/info/shopIt might not be entirely clear from that, but more sections == more maintenance costs.
I have some other plans as well, which are similar to your ideas, but they are not finished, yet.