Have fitted the wind-up windows. They work a treat and the doorcards tidied up pretty well. The drivers seat armrest is a little saggy. May have to look into how best to fix this at some point.
Was pleasantly surprised to find that there is no difference in the doors between the wind up and power window models, the wind ups bolted straight in to different positions than where the power windows were mounted.
Also spent 5mins to tidy up the panel where the ECU is as per the picture below.
Went through the wiring diagram and removed the 80A fuse for Power steering and ABS so the main power for each of these won't short at the plugs. Still taped up each plug from the removed units
Went to update the ECU however I confirmed it is already running the latest firmware. As a test of why it is running so crap I tried to load my first tune that was supplied with the ECU, however this made no change as to how it ran and idled. So as this used to be better there must be something wrong with the engine itself causing the misfire and general poor running.
Basically where the engine is at now:
Constant misfiring. From what I can tell all injectors and spark plugs are working. As I can feel each injector pulsing and I had checked the plugs/leads earlier. Although I will recheck these to make certain that they are ok.
The 02 sensor is taking readings from the front bank of cylinders which is giving a reading of between 10.5 and 12 air fuel ratio. Which seems very rich for just idle.
At this stage without further opinions I plan to get a compression tester on payday to check that it hasn't done a headgasket/warped the head.