Interesting thread to say the least ...
I have 28 basses. Some are stock, some aren't. My '73 Fender Jazz bass is heavily modified, e.g., J-Retro preamp, Badass II bridge, new tuners, new Seymour Duncan Pickups, etc. I modified it because while I liked the bass in its stock form, it still lacked something to make it more playable and sonically pleasing to me. Hence the mods. Fender purists would think I completely defiled this bass. I don't think so. After seeing what some of these good condition vintage Fenders are going for these days, I think my modifications increased the value rather than decreased it.
Some of us think that modifying an Alembic in any way is heresy. Others think the opposite, that an Alembic owner can and should do whatever they deem necessary to make it better for them. Neither are wrong, merely opinionated, and that's cool.
For me, it's your bass and your money. Do what you want with it, regardless of make or cost. In the end you're the one playing it, not someone else.
Leo Fender built the first Fender Precision with bolt-on parts (and most of the subsequent Fenders were built in the same way to my knowledge). I have to think that Leo did this because he knew that players might want to modify them at some point, or at the least make it easier to replace a damaged or worn out part. As I see it, if Leo thought this, modifying a bass is not only OK, it's completely normal and expected. I could be wrong about why Leo did what he did, but it's an interesting topic for discussion I think.
I don't modify my Alembics (though I am thinking of getting a Q switch for my Essences). I like them the way they are. Should they need changes or modifications in the future, I wouldn't hesitate to make them, although I'd probably send them to Alembic to have it done (I'm not good at that kind of thing).
Bottom line: it's yours. Make it more yours in any way you see fit. If others don't like it, well, that's their prerogative.
Alan