Sounds like a nice project.
I'll leave the IGN and Sense wires for someone more knowledgeable to comment on.
For the starter, there should be a heavy gauge starter cable running from the battery +ve to the large stud on the starter. The heavy output cable from the alternator also connects to this stud - not because it needs to connect to the starter but because its an easy connection to get the alternator output back to the battery.
On my '85 model the main power feed for all systems also attaches to that large stud. Again, its just a convenient place to get a feed from the battery.
The small wire on the starter is most likely the wire to the starter solenoid. When it has power the solenoid engages and the starter runs. It should be connected to the output from the starter relay (relay lives behind the fuse panel I think).
Someone (maybe Bush65 ??)has uploaded an Isuzu County wiring diagram here previously. See if you can find that as it should make things a bit clearer. It won't show the connections for your alternator as the original alternator had an external regulator, whereas yours has an internal one so less wires to connect.
Steve
1985 County - Isuzu 4bd1 with HX30W turbo, LT95, 255/85-16 KM2's
1988 120 with rust and potential
1999 300tdi 130 single cab - "stock as bro"
2003 D2a Td5 - the boss's daily drive
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