I am a BANME! to MS, but I'll throw out my 2c. I used MT Log Viewer to do all my rough in and fine tuning. I adjusted the target A/F map (with wideband selected) to match the target map in VEXME. After 2 good logs, things were running at decent drivability level. I then tweeked the map to my specs.

AEM cam gears, .030 over, .020 milled head, Unorthodox UDP, port match intake/head, polished exhaust manifold, e-bay CAI, Magnaflow muffler

1995 GS A/T: Crushed, what started it all
1999 RS M/T: Back to stock
Mazdaspeed6: sold and quazi missed
1999 Eclipse GSX: HX35, waiting for Shep STG3