What is your preferred 5 string configuration? (Pickup Config, Active/Passive, Scale length, Bolt on/Through neck, String Spacing, type and gauges)

Passive 5 string P bass. I've tried numerous other options, active vs passive. Single pickup vs multiple. Bolt on vs neck through. At the end of the day, a solid 5 string P bass does everything I need out of a 5 string for 99% of the gigs I get and still works for the remaining gigs well enough.

How picky are you about the split coil. I find it's a weird subject with 5s because the coils are frequently asymmetrical unless you you're paying attention and find one with symmetrical coils but only two pole pieces on the bass end. Not to mention reverse P or standard configuration.
 
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I prefer passive, bolt on Jazz basses. 18 mm spacing , 34 " scale.
I like a wide , flat fretboard.
EB Cobalt flats 45-130 for now.
Strings seem to make the biggest difference and finding the right set for each bass takes some trial and error.

All that said, I also really like my Stingray 5 which is not so much like the description above.
 
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34” scale, bolt-on, rosewood or maple
HH pickups, active electronics
17.5mm string spacing
Round wound, 45-130 or 45-125 strings

Music Man basses work for me for tone and playability. But I also play passive J- and P- basses and others.
 
I'm definitely partial to: 2 pickups (jazz style if you have it please), active, 35" scale, 19mm string width, and a maple fingerboard. I'm agnostic about bolt on vs through necks but most of mine are bolt on. The two MTDs in the foreground are my main players that get almost all of the use. I don't care for the Schecter at all, but it looks nice so I just keep it on a wall hanger and it never gets played.

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After playing countless basses, in my own opinion, a good B comes from having a proper break angle for the B. So either a string retainer on flat headstocks, tapered posts on the tuner, or an angled headstock, all of those help with the Low B “definition”.

I really think the scale length debate(34 vs 35 vs fanned) comes down to how hard you play. If you play super soft, you wouldn’t even tell the difference. On the contrary, if you play hard, like with a pick, the fanned fret really helps maintain definition during those aggressive plucks.

All the other things, like string spacing, pickups, strings, etc., are personal preference. Bear in mind that wider string spacing usually calls for a wider neck, which again, personal preference.
 
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I have 5 5 string basses and at this point in time I prefer my old 1995 Ernie Ball StingRay 5. 1 coil tapped pickup, 3 band active EQ, 17.5 mm string spacing 1 3/4" at the nut. New ones are a lot lighter. Mine is a boat anchor
 
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I have four 5 string basses. 32", 31" and 30". The 31"scale feels best, followed by the 32", and the 30" feels a little cramped for my liking. All have 18mm string spacing. Two pickup dual coil humbuckers (or P/J config) and preamp with active/passive switch with a passive tone control. Bolt on neck. I build my own basses these days so the bolt on is easier for me.
My daily driver is 31" with Bartolini P2's and East preamp(blue bass), and #2 is 31", has Nordstrand Zen blades with East preamp (white bass) and the #2 runner up is a 32" P/J with hum canceling J and Noll preamp.(green bass) The others still see a little action, but very little these days.
Edit: Both the 31" have Dunlop flats and the 32" P/J has Dr. Legends.
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I thought 17mm bridge spacing was what I liked based on my Spector Euro 5. It turns out narrower nut spacing (45mm or 1 3/4”) is what I like with either a 19 or 17mm spacing. I’m fine with 35 or extended Dingwall lengths.
 
I've only owned/own one 5 string and it's the Yamaha BB435; which I have Nordstrand pickups in. Based on my time playing it I wish I had two Soapbars; although the precision does sound great in this bass. It's passive but I could see the merit in having active electronics; and lastly the string spacing is 18mm, and I wish it were 19 more like a 4 string precision (wish it had a maple fretboard too :/). I've played some Stingray Specials that I adore the necks and spacing on; this one is certainly a little tighter. I use La Bella RX Strings after trying a little bit of everything; these are the ones that sound the most balanced to me. I have 45-65-85-105-130's on here and they're just butter. Currently with nickel wound but I love the steel strings too. I know it seems like I don't like this bass (reading over it myself I'm questioning why I've put so much work into it) but it's my every day player over my 58 AVRI Precision and a Serek Midwestern II. It plays great; sounds great and is relatively light (Hipshots helped a lot.) I didn't pay much for this bass which is why I went in on it; first time getting a 5, but if I were to custom order one my specs would be more in line with what I've mentioned above!
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I've played fives since the late 80's, owned more than a few, and while I can't recommend a brand, I can tell you what I found works , , , for me. This is totally One Man's Opinion from close to 40-odd years experience, Utterly subjective and opinionated.

I prefer 24 frets on a neckthrough instrument. I like having the extra maneuvering room 'up there', and with a neck through, playing 'up there' gets a lot easier:

First, there's no $^*$*@#&*!~~~!~!!!! neck block for the screws on Fender-Shaped-Objects. I HATE those. With a neck through, you have a very smooth transition into the body on the backside.

And Second, there's always a much deeper cutaway on the treble side which helps as well. One of my pet gimmicks is to zoom up there and double a vocal line or lead lick, and that layout makes doing that a breeze. I also love playing bass with acoustic guitars in a no drums setup, and if I need to be an octave up to complement them better, again, much easier to do that. I don't want the bass' backside in my way.

For that neck through axe, I prefer harder/stiffer woods than softer ones: In my experience this helps focus and tighten up the notes, especially in the deep end on the E and B. So timbers like maple, ash, ebony fingerboards, these sorts of hardwoods worked better for me. My first was a Peavey Dyna Bass Five, and that poplar body did me no favors, believe me. The Yamahas were alder which was fine as well. I prefer ebony fingerboards for their hardness and strength, it's like having the fingerboard do the work of stiffening rods. The Alembics ran full 1/4" ebony boards and let's just say the necks were very well behaved. As long as I'm south of 10 lbs. I'm good. String spacing like a Precision is fine. And a flatter than rounder neck profile.

I prefer sealed keys, and a good bridge and Dunlop strap locks. String through the back is a non-starter for me, I don't need one more way to buy the wrong (2 short) strings, and I don't feel much difference to top load.

I prefer active pickups (the real low-impedance ones like EMG or Alembic) and active tone, though bass and treble is enough, I don't need mids. And ALWAYS a balancer instead of individual volumes: I prefer to set the blend then raise or lower output on one knob not two. I'm a big EMG fanboy, I could run them on any and everything I own and be tickled. Great tone, and quiet as a granite block, I HATE electronic noise.

I'm not a big fan of active-electronics-with-a-bypass-switch: These are high-impedance pickups hooked up to a powered tone network. Done right (like the 7-series Yamaha BB's), they're pretty transparent. Poorly considered, you take noisy pickups and amp up the noise. Nope. And I'm not worried about having an EMERGENCY switch to go passive.

9v batteries are NO BIG DEAL. I always changed mine every 4th of July and at Christmas, they were never a problem, and you always take a spare with you. Nothing to it.

I have yet to try a 35" that I could say with no reservations felt and sounded better than a 34" five. I stick with 34" as it offers the most choice for strings.
The 'floppy' B-string is a result of the physics involved to cram that pitch into that scale length, so it is what it is. Do some basses or strings feel 'tighter'?
Sometimes, but never in my experience, again, enough to make me think THAT's the one I got to play. I made my peace with the B-string years ago, and I just play it along with the other four.

I have yet to play a fanned fret instrument, and can see where this could be a great idea, but no experience yet. Yes, strings on a piano harp are different lengths (longer as you go deeper) and is the standard. Does it work on a bass guitar? I'd love to find out.

These are the things I prefer, and hopefully explained why. These things are utterly personal, so I'd urge you to think what would work for YOU.

PS: I prefer a good, padded gig bag to a hard case for non-traveling, no bus, no truck, work.
 
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I’ve played 5s exclusively for about 20 years now, and I can say that the quality of construction matters (to me) more than most of these specs do.

But, all other things being equal, I like 35” scale with dual coil soapbars and an active preamp for fretted and 34” with a PJ configuration for fretless, both with 19” spacing and a flat, thin neck profile.