I am a general idiot and not qualified to own a boat with an engine or anything electric. Despite this severe handicap, I am the owner of a 2005 C400 I bought in 2010.
The boat's basic wiring is still in its stock configuration as near as I can tell. The original 4D batteries are no longer holding a charge, to the point that even one night at anchor is enough to severely drain them. Time to replace them. The Alternator is the Hitachi LR180-03C that came with my Yanmar 4JH4HE engine. The battery charger is a Charles 5000 SP series charger. I know what folks think about the Hitachi alternator, but I am just not up to replacing it at this time. The Charles charger as near as I can tell is not terribly good by today's standards either, but again, I don't want to change it now. The original batteries have lasted for 10 years, so while they may be poor, that isn't too bad.
Here is what I want to accomplish.
1. Replace the existing two 4Ds with a single house bank of four 6v batteries, which I have already acquired.
2. Improve the way the system is wired using advice that I have read over the past 5 years by Main Sail and Stu.
3. After #1 and #2 are done, I want to add a separate start battery and echo charger to charge it.
4. Spend as little money as possible.
I have some specific questions, but first this is the way the boat is currently setup.

This is how I think I want to change the system in the first step.

This is how I would like to accomplish the next step. You will notice that the Alternator is connected to Post #1 on the 1/2/Both switch rather than the House Bank positive post. My thought (being the idiot mentioned above) is that this will connect it to the House bank.

If attaching the Alt to the #1 post is a bad move for whatever reason, this would be plan b

OK, some specific questions.
1. What size wire for the interconnecting cables for the 6v house bank batteries? Currently, the connections from the batteries to the switches are 2/0.
2. Can I connect the Alternator to the #1 post on the 1/2/Both switch or does it have to go to the House Bank positive terminal?
3. Have I gotten the basic wiring diagram correct? My idea (not really my idea as these were ideas I got from Maine Sail and Stu) is to keep the 1/2/Both switch on #1. Keep the engine On/Off switch On. This will then always start the engine with the start battery, and the House Bank will handle all the other electrical loads.
If the Start battery should fail, I would turn the engine switch to OFF, and turn the 1/2/Both switch to Both. This would allow the House Bank to start the engine and completely isolate the Start battery.
If the House bank should fail, I would leave the Engine switch ON and turn the 1/2/Both switch to Both. This would allow the Start battery to power VHF and Nav lights.
4. What wire do I connect from the Alt to the House Bank? There is a very tight, organized, and completely inaccessible bundle of wires that run with the Alternator wires to the starter. Basically, there are three small gauge wires connected to the starter on the same post as the 2/0 positive cable coming from the On/Off switch. I assume one of those is from the Alt as the Battery out wire, but any idea how to tell which and what the heck are those other two wires? If anyone has done this on a similar Yanmar I would love some guidance.
This is the back of the alternator.

Again, sorry to take up so much bandwidth with my own ignorance, but any help would be appreciated.
Dave
The boat's basic wiring is still in its stock configuration as near as I can tell. The original 4D batteries are no longer holding a charge, to the point that even one night at anchor is enough to severely drain them. Time to replace them. The Alternator is the Hitachi LR180-03C that came with my Yanmar 4JH4HE engine. The battery charger is a Charles 5000 SP series charger. I know what folks think about the Hitachi alternator, but I am just not up to replacing it at this time. The Charles charger as near as I can tell is not terribly good by today's standards either, but again, I don't want to change it now. The original batteries have lasted for 10 years, so while they may be poor, that isn't too bad.
Here is what I want to accomplish.
1. Replace the existing two 4Ds with a single house bank of four 6v batteries, which I have already acquired.
2. Improve the way the system is wired using advice that I have read over the past 5 years by Main Sail and Stu.
3. After #1 and #2 are done, I want to add a separate start battery and echo charger to charge it.
4. Spend as little money as possible.
I have some specific questions, but first this is the way the boat is currently setup.

This is how I think I want to change the system in the first step.

This is how I would like to accomplish the next step. You will notice that the Alternator is connected to Post #1 on the 1/2/Both switch rather than the House Bank positive post. My thought (being the idiot mentioned above) is that this will connect it to the House bank.

If attaching the Alt to the #1 post is a bad move for whatever reason, this would be plan b

OK, some specific questions.
1. What size wire for the interconnecting cables for the 6v house bank batteries? Currently, the connections from the batteries to the switches are 2/0.
2. Can I connect the Alternator to the #1 post on the 1/2/Both switch or does it have to go to the House Bank positive terminal?
3. Have I gotten the basic wiring diagram correct? My idea (not really my idea as these were ideas I got from Maine Sail and Stu) is to keep the 1/2/Both switch on #1. Keep the engine On/Off switch On. This will then always start the engine with the start battery, and the House Bank will handle all the other electrical loads.
If the Start battery should fail, I would turn the engine switch to OFF, and turn the 1/2/Both switch to Both. This would allow the House Bank to start the engine and completely isolate the Start battery.
If the House bank should fail, I would leave the Engine switch ON and turn the 1/2/Both switch to Both. This would allow the Start battery to power VHF and Nav lights.
4. What wire do I connect from the Alt to the House Bank? There is a very tight, organized, and completely inaccessible bundle of wires that run with the Alternator wires to the starter. Basically, there are three small gauge wires connected to the starter on the same post as the 2/0 positive cable coming from the On/Off switch. I assume one of those is from the Alt as the Battery out wire, but any idea how to tell which and what the heck are those other two wires? If anyone has done this on a similar Yanmar I would love some guidance.
This is the back of the alternator.

Again, sorry to take up so much bandwidth with my own ignorance, but any help would be appreciated.
Dave