Just to clear up some ambiguity for me, the bass pickup is the neck pickup, and the treble pickup is the bridge pickup. It sounds like you're saying the bridge pickup is louder than the neck pickup with this statement "bass pickup is louder than the neck pickup," and "Edit: Substitute the word "bass pickup" for bridge pickup"
Because what is expected is that the bass (neck) pickup to be louder than the treble (bridge) pickup, but with normal factory presets on the preamps we balance them to be about the same.
Anyway, please clear this up for me so I can think straight, thanks!

I understand how confusing it must be, in hindsight. When I mention the neck pickup, and I will try to be more precise here, I am talking about the pickup closest to the neck, and when talking about the "bass" pickup, I am indeed referring to the bridge pickup, as in the pickup closest to the bridge. I probably used these terms incorrectly, after having read your instructions on how you regarded the pan between neck and bridge pickup, as a choice between more treble or bass, when talking about signature electronics.
But what I am in fact experiencing, is that the
bridge pickup is quite a bit more louder than the neck pickup, which I found to be a bit unusual. If I pluck an open D and pan from the neck towards the bridge pickup, the sound gets louder when fully panned towards the bridge pickup. And if I start with the pan split 50/50, and then pan the line on the knob fully towards the neck pickup (as in to the left, looking down from the top of bass, in seated position), the tone is quite trebly and "nasal", whereas panning it towards the bridge pickup, results in an almost overpowering bassy tone. I should note, that the bridge pickup is positioned higher than the neck pickup, as per instructions I found somewhere on this website. I am 99% certain that the trim pots on each preamp were both centered in the middle, while I was changing the 9v battery.
As I have discussed with other members in this thread, the strings might just be worn, but with them being nickel-alloy strings, I find it a bit peculiar that they suddenly went from sounding normally "Alembic-like", to being very midrange and "boomy and indistinct", out of pretty much nowhere - I wouldn't be surprised if they were stainless steel strings, since that seems to be common with that type of string.
If I am still being unclear, I apologize, and please let me know, so I can try to clarify anything that might be confusing.