The SCT Flash Tuner is a fantastic product. We have been working with them from near day 1 developing this product. We have sold many, many flash tuners, all with positive results. There of course have been a few bugs along the way on some of the rarer processor codes, but nothing that couldn't be solved with a few phone calls.
The cost difference is so vast between the AEM and SCT because the SCT does not require a new computer! The AEM is a whole new hardware bundle... with a whole new bundle of potential issues as many people know. The quality between the two choices is no contest; the factory computer is of higher quality than the AEM any day of the week. The OEM computer itself is an extremely well designed and thought out computer system, has millions of dollars in R&D behind it, and almost 15 years of use under its belt. Suffice it to say, the AEM does not, and it shows. The only downside to the OEM computer is that it was designed to control primarily Normally Aspirated engines, and it lacks some features for heavily boosted applications.
The AEM certainly does have a few more bells and whistles, and can control some engine configurations that the OEM computer cannot, such as high levels of boost, integral wideband and integral boost control... but if your setup does not directly REQUIRE the use of the extra features on the AEM, Motec, Pectel, etc... you should absolutely be going the route of SCT.