Test 3 between the battery positive & the coil negative with key off should be 0, but I'm getting full battery of 12.44. With ignition on should still be 0, but now I get .11. When cranking it increases to .25.
First off, Kevin, I think nothing is wrong with the readings you see.
A long time ago, I recall a thread where someone was attempting the test you are doing and it was pointed out that the Manual is wrong. This should not be shocking, just a reminder not to believe everything you read.
If you connect the VOM between the Bat.+, and almost anything on the truck, you'll get some reading, depending on the resistance to ground your neg VOM lead is connected to.
The simple truth is, that when you are running, shut the key off, and the engine stops, you have broken the voltage path from the battery, and are no longer getting + voltage to the ign. circuit, and life is good.
If it's of any reassurance, I have tried to replicate what you did, and also show voltage. I am not remotely troubled that I see this ( if it's only because I have more experience with electrical systems, than the proofreaders of whomever writes Land Rover manuals) I'm not suggesting that you even bother, but were you to unscrew the amplifier from the distributor, you would see your meter go to zero, because the amplifier gets a ground from the heatsink plate on the back of it.