is the hole thats unconnected before or after the AFM, if its after the AFM then your letting in more air than whats been metered by the afm, which will make the ecu go nuts and stall the car as the ECU cant keep up and is noticing somethign isnt right...
 
if the hole where the BOV is meant to plumb back into is left open then this will cause the problem..
 
car runs better with the bov plumbed back btw specially on an AFM equipped car.

take a pic of your inlet piping showing the unplugged areas, if you can , will def help diagnose this issue
 
a cut down broom handle also works temporarily to plug the bov plumb back hole

Will do, unfortunately I dont get back home from work until 7-8pm most nights, so I will post it around then. Cheers fellaz. Really appreciate the support.

No problem mate. That's what the forum is for.

Ok so here are the photos of the air intake area. I also inspected the ecu to see if there was any leaky capacitors or anything else faulty but it all looks ok.

http://i1355.photobucket....G_0104_zpse6e3295a.jpg
http://i1355.photobucket....G_0100_zps87786e3f.jpg
http://i1355.photobucket....G_0099_zps969d3565.jpg
http://i1355.photobucket....G_0101_zpsd0998131.jpg
http://i1355.photobucket....G_0102_zps001ad5e8.jpg
http://i1355.photobucket....G_0103_zpsbf6252f2.jpg  

i cant see if the BOV plumback hole is covered up, the rest look ok to me

Yeah it is. There is a black cap tightly on it. The mechanic said he plugged it up. The issue has to be electrical with the ignition coil/circuit or the ecu not recieving the igf signal.

A BOV or Intercooler would not make the car turn off once its running,
 
I have seen the same problem before on a MR2 and it was the turbo timer,
 
Think about this: what is the one modification that you have that directly interferes with your starting system?  The turbo timer.
I would start by removing that, then start checking other items and through process of elimination you can find the fault.

hmmmm thanks mate. Will def look into it more. Are you saying to disconnect the turbo timer wiring? The mechanic did say that after he played around with the turbo timer settings, the car would eventually start. I have tried turning the turbo timer to off, but with no success. The one time the car did start straight away was when I unplugged the ecu and plugged it back in, though as soon as i turned the car of and tried to start it again, the same issue.

So when it starts after unplugging the ecu does it idle/rev/drive fine?