This software is not difficult it is very similar to HPTuners (GM/Ford) and LS Edit, both of those have been around for 15 years. You are merely trying to achieve an ideal a/f ratio in both open and closed loop.
We will all have different mods and priorities, therefore, different needs, with that in mind here are some of the changes that were made to my 97. There are a whole bunch of minor changes that can be made, the following are the basics:
1. Raised idle to 750 rpm - Idle folder, changed 60 degree C cell to 750.
2. For the drag strip I changed the high speed fan parameters so that the low speed temp is maintained at 180 - environment folder.
3 To get the a/f correct for mods at partial throttle (driveability) you have to modify the "Fuel Table with EGR and No EGR" This is the key to starting the tune. This also affects wot operation.
a. You start this part of the tune by turning off the LTFT. (Turn it back on when you are done). This is done is in the "Adaptive Learning" folder by changing the on/off switches. This now forces the car (in closed loop) to only use the STFT. I also changed the closed loop upper limit to extend the rpm range in closed loop.
b. You can now use the Palmer Engineering OBD software to build tables of STFT versus rpm and load.
c. You then take the Palmer table data and modify the appropriate cells in the "on/off EGR Fuel tables" in SCT.
d. If you have changed injectors you should already have changed the above table to approximate your increase in injector size. This is done prior to modifying the table relative to tuning with the Palmer software. In other words it is a two part process, changes due to your injectors and then changes from your road tune. There are also other parameters that must be changed due to injectors. Theyare fuel related and have an impact but are less significant.
When you use the Palmer table logging software all you have to do is drive the car for about 30 minutes at different rpm/load combinations. This will generate a table log of your STFT, in affect the changes you must make.
4. Once you get your STFT's close to +/-7.5% (that is arbitrary) you now start refining the tune. If you have major mods you will be shocked on how far out the STFT's are.
A. I then moved to the Fuel Table/Power Enrichment Multipliers - this is basically a WOT modifier to achieve the correct a/f. I like 12.5 NA and 11.0 on the bottle under WOT, however, each to his own.
B.You should now have an ideal a/f ratio during closed and open loop, however, if you have a hesitation or stumble you might have to go the the AE Fuel folder and adjust some values within that folder to fix the hesitation. If Fuel EGR was done correctly you probably won't have to make many modifications here.
5. One of the last changes should be to the timing, this is done in the "Spark When Warm", Spark with EGR" and Spark with no EGR. Each to his own in defining the ideal values.
IMHO unless you have aftermarket widebands don't bother with the software. One last item, once you get the STFT deviations in the Palmer software, if you pay attention to the total pulsewidth, your cell changes will result in exactly what your target is. In other words it does not take many tuning session to get the a/f correct. I used a spreadsheet that directly imported the Palmer values - this made the changes exact.
The above outline is not complete nor is it the only route through the software - as was indicated when in doubt, Dan can walk you through this.