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TreeClimber, Tech Mod.
And I too an REALLY not a fan of Battery Isolators. I like the Marine/RV switch for batteries the best. Although a Continuous Duty Solinoid works well too.
For your situation, I'd take the Isolator and second battery out of the rig and simplify your wiring. Then see if you can isolate a battery draw. Easiest way is to use a multimeter to check for minute battery amperage loss, but if you don't have a multimeter (and you can't borrow one) then hook up everything (without the other battery and isolator) and remove the ground from the remaining good battery. As you touch the ground to the battery, you'll see a small spark. Pay close attention to the spark size. The smaller the spark, the smaller the battery drain. IF it's an almost non-existant spark or no spark at all, you have virtually no battery drain. IF it's a big ass'd spark, you've got a big ass'd drain on the system. So now you start individually pulling fuses from the panel (start with anything that's aftermarket'd wired into the truck) and after each fuse is pulled, repeat the ground/spark test. When you've removed the spark at the ground by pulling the fuse, that means you've isolated the circuit on which you've got a problem.
Good luck