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I'm not sure at all why you'd swap a SOHC into anything but that's your prerogative so I wont question you.
As for hooking up the harness as you'd like. It's pretty simple. Plug the ecu harness into the ecu and run the engine harness into the bay to all the plugs they need to go to.
If they aren't plugging into anything on the engine then they have nothing to do with anything plugged in on the engine lol. Pretty easy huh?
Basically if you're just looking to run all the sensors on the engine, then all of the plugs you would need would run right to the motor and designated sensor etc..
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