Nope they are not tied up, and yes you maybe right as I only have the CD model.
Removed multiplugs and that has erradicated the autobox fault (THANKU). One down lord knows how many more to go.
On starting up it now takes about 5 seconds for the EML to come on. Not checked O2 sensor yet. GOt to get jack out for that.
Did paperclip test again and its coming up with 0120 and 0340 so crank and cam sensor. Have already replaced the cam sensor and I know when autotune guy was here it did not show cranksensor as a fault cause he had engine running whilst doing test. Have found paperclip will only work when ignition is off!
Ahhh so we're making progress then! Presumably, when you removed the multiplugs, you then reseated them?

I think you can only flash codes out of simtec ECUs (like yours) with ignition off
The 2.0, believe it or not, will run without a crank sensor. Make sure this is plugged in!!! will your car rev all the way up to the redline?
I still think something is unplugged or not seated right etc...