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There are a couple of sensors which could also be causing problems. Crank position sensor, or I have heard of another sensor on one of the injectors (No. 1 I think). My Patrol has played up like you describe after water crossings, and I've always put it down to a wet sensor. Mine doesn't last long, and clears itself fairly quickly.
Mate I have an electronic service manual if you need a copy please PM me your e-mail address and I'll try and send it through.