Pre turbo is going to give higher readings and if pulling heavy this is the number you want to watch. Heat is used up through the turbo. Cross over gives heat from one side and just before turbo on right manifold gives an average of both sides.
Did you replace the Crank Position Sensor? If you reused the old one was the sensor and bracket all one piece or were they two separate pieces? If the sensor came apart from bracket you can put it back 4 different ways and only 1 way is correct. Timing the gears you align the crank dot to 12...
And their is other engineering that is there that you would not even think of. Here is a recall I just had on my 2010 Golf TDI.
http://www.autoblog.com/2011/10/06/vw-and-audi-recall-nearly-170-000-tdi-diesel-models/
'just replaced my injection pump minutes ago, yes heat flange takes some pulling, I took me 5 hours total, replacing valve cover gaskets so i had to remove injector lines completely, but no problem, easy, good luck"
WOW that must have been tight! :D:D
To get at the bottom two lines on the IP I removed the harness (boot and two wires) from the fuel solenoid. I took an old box end 12 pt wrench 19mm I think and ground it to make a line wrench. You have very little room to loosen/tighten lines. And yes that shield should pull up, their are 2...