Nope, the Apexi was wired up by me years ago, all wired to ecu end of wiring, only vehicle speed to gearbox sensor enters the engine bay.
I dont think it will be anything to do with the apexi to be honest.
As far as lag goes, i have a 1.9T running a GT2871R now and the spool up is about exactly the same as the
ibiza was, the apexi was plumbed into only weeks before derrick sold it. It was mapped with N75 plumbed in. Plumb it back in and recheck, i reckon it will be much better.
Apexi was left in purely as a gauge, and was originally installed to control the GT2X. I bet its not setup correctly, takes ages of fiddling to get them right, no need for it on your car.
What are the results of the compression check? if disconnecting the coil pack makes no difference to it, then its got to be down on compression on that cylinder in my opinion.