I went through a similar exercise last fall. For me it was space (small boat) that kept the budget reasonable. I went with two Axiom 9, Quantum radar (not Quantum 2, because that was another $1k), and both Navionics and LNC charting (LNC is cheap and I like a second opinion).
You have a lot more space on a GB42 (dream boat of mine!) and maybe two helms to consider (or maybe you don't use the flying bridge in your area). But then too, you've set a budget limit.
I'm not sure I'd say the Axiom Pro (if going Raymarine, not saying you should) is best bang for buck. I went "non pro" for space reasons, but I did check to see if I'd be missing something critical because I could have done one Pro vs. two non-pro. The main differences I noted:
1) Better depth sounder internal module (but this is for serious fishing people buying big $$ transducers, IIUC)
2) Two Raynet ports. You may not need two. You need one for hooking two MFD's together, and one for wired (vs. wireless) radar. So if you want both of those things two is a benefit. You can buy a module with five that sits separately, but it's like $250. But for a simple system, either one MFD and a wired radar, or two MFD and a wireless radar, you could go non Pro and expand later if desired.
3) Card slot on front not back. Obviously on a "built in" MFD this is a key feature. Again you can get a remote module (~$100), but for one MFD on a trunnion, maybe not a big thing.
4) Pro has knobs on unit (non-Pro is touch only). Options are nice. BUT, if your MFD is not in easy reach, you can get a separate keypad module (RMK-11, I think) for the non-Pro and put it at your fingertips. That's my plan if touch only - or the screen reach - proves to be a problem.
5) In 9" size, Pro has better screen resolution and type. Better may not be needed, but something to consider. OTOH, 12" non-pro has same screen as Pro, so that's a special case.
These were the big things I noticed. But for me the Pro was much more expensive, and I couldn't have fit two units. So I went non-Pro. The remote keyboard and/or remote card reader can be added later if desired, as can a "switch" (as they call it) that has multiple Raynet ports.
Radar:
Quantum vs. Quantum 2
Quantum is broadband vs. Magnetron. I wanted broadband because it is less power hungry, potentially less dangerous if exposed (my boat is small, someone could get "radared" if on sidedeck or foredeck and it was on), and lighter (probably no biggie for you). Quantum 2 introduced Doppler, which seems like it would be really nice because that's what shows red targets if coming toward you and green if going away. But Quantum 2 was around $2k, and I was able to get Quantum wired factory refurb for $1080. Quantum it is
Side note: With Quantum 2 there is only one variant. With Quantum wireless-only was cheaper and wireless-or-wired was more. I wanted the option of wired so went that way.
So an estimate, presuming these would be available now, and not looking up each price but going by memory:
1) Axiom 9 at helm, with sonar and Navionics charts: $1500
2) Quantum radar (not Quantum 2): $1200
3) Transducer? I use a transom mount so not in your league.(My Axiom came with fancy "vision" type transducer but I use an Airmar P66 for my main data as it has what I want: Depth in feet, water temp, and speed through the water so I can deduce current). Adapter cable was around $50
4) LNC charts, if desired: $50
5) Cables, etc.: $200 (estimate)
6) Basic NMEA 2000 network backbone, extra components: I went SeatalkNG because each component comes with some of the cables, etc. and also they have small heads for routing. But you can adapt to any NMEA/Devicenet style plugs. Anyway, had to buy a few extra things (but I added autopilot too): $200
So that's around $3000. You could add another Axiom 9 screen (would not need charts model, could get sonar one for redundancy or less expensive non-sonar one -- will share charts and sonar with other Axiom 9). Or you could get just one Axiom 12. If you have space that is a really nice screen. OTOH two 9's give you some redundancy and you can split duties between them. Or maybe Quantum 2 radar would eat up the "extra" $1000.
Or go another brand of course. This was just some ideas since I recently went through it. There are many really good ways to do it nowadays. It's somewhat mind boggling compared to 20 years ago