Generally the best way to buy S2 electronics is to order a Mark King model and upgrade it. You can have it built with any of the Alembic body styles, custom neck scale and dimensions, etc. Depending on the top wood you want (cocobolo used to be free on the MKDeluxe - but a costly upgrade on the Series 2 model), you can often get a
big savings and literally the only difference between the upgraded MK and the Series 2 model is 2 extra accent laminates in the body of the Series 2 (barely noticable). I actually saved a couple of thousand dollars ordering my Alembic that way. Also, shop the monthly specials. They usually let you get a sizable break on particular features.
Check out the quote generator (features and packaging change from time to time). Once you are pretty sure you are ready to order, talk to Mica, Val or Susan at Alembic about what you are looking for. They are super to work with and will make your custom building experience a very nice one. They can give you lots of insights your dealer doesn't have (After all, making Alembics is all they do, while your dealer does a lot of other stuff.).
I no longer have my custom Alembic (had to sacrifice it to finance my son's college), but I miss it every day. I'll own another Alembic (it wasn't my first), but I doubt I'll be in a position to spring for "the whole dog" again. If you can make it, a trip to visit Alembic in Santa Rosa is great experience. They will welcome you like family and show you stuff you won't believe (just call ahead so you come at a good time). While I was there, Susan handed me fantastically inlaid, quilted cocobolo bass that was destined to become a gift from Alembic to Stanley Clarke. You don't get to play one like that every day... Have fun.