Like many of the previous posts say - either one can get you there. But I've had two very reputable dealers who I have confidence in tell me that the ecm can tell if there has ever been a PC installed and this could be a warranty issue depending on what failed.
And while I've personally used PCs with great success I've also had some problems. On the old twin cams with the MM injection before Delphi the PC had to mount under the left side cover and a very large cable ran to the ecm on the right. After a couple years the cable got chaffed and it really screwed my bike until I figured the problem.
And just last month a buddy (who does all his own wrenching) and just completed a build and had a PCIII installed 6 months ago started experiencing runability problems - lean condition. The tuner checked the PC and it was fine. But after new fuel pump, fuel filter, fuel lines, injectors and throttle body guess what? They finally determined the PC was the culprit. For my $$ I just wouldn't take a chance with an add on. I'd go for the SERT any day. Just my $.02.