Ok, so everybody's proposing their own options.

It's all good.
I'd be happy to have more options myself, such as different neck shapes, e.g. JC asymmetrical analogs of HP Super Wizard (current), HP Wizard, HP Ultra, different scale lengths (27"), body woods and styles (RGA, RGT), bridges, fretboard marking, unlimited choice of pickups and colors.
However, dare I remind you that we don't have ANY single option available at this juncture.
Having taken this into account, I deliberately proposed a very limited choice of options for the following reasons:
1). You can notice that nearly all options proposed in the original post have already been incorporated into J.Custom models at some point in time. Hence it won't be that difficult for Ibanez to do it from a technical standpoint. They have to start somewhere, and they can always add more options as it progresses.
2). Ibanez is more into mass production models these days. More low budget models than any time before. It doesn't seem to be a priority for the current management to invest into a fully custom shop that will most likely take years to pay off.
3). LACS offers fully customizable instruments to artists holding an endorsement with Ibanez. It's a huge attracting factor for the artists. Making every option under the moon available to the public may negatively affect the size of Ibanez's now vast artist roster and therefore diminish total sales rates.
4). Semi-custom instruments will likely take a few months to build, as opposed to years for fully custom instruments. Same goes for the price: allowing for a strictly limited number of options may not increase the price at all as compared to current RG8xxxZ's, or it may even help drop the price without sacrificing quality in the long term if the business model turns out well and currency exchange rate issues are promptly addressed by the management.
As for me personally, I'd gladly order more than one instrument (think RG8xxxZ, RG8xx7Z) if only I could ditch the vine and have wooden (flamed maple or perhaps some other species) binding/no binding option. I'd probably be interested in Ebony fretboard Neck-through's as well, as long as it's not a +JPY250000 option.