Finally got it working. First let me thank all of you for the attention and the help to this MegaSquirt noob. Second I’m by no means a mechanic or anything close. So the following info is for any other Noob that might be stuck like I was. Here is how I got it working.
1-Went to “Engine and Sequential Settings” and entered the engine displacement and injector size for my Miata (99 NB. I don’t know if this matters or if it's a placebo effect. But the base map that I downloaded didn’t had these values entered, and I felt like Autotune worked faster when I entered these values)
2- I drove the car with the AC off and let “AutoTune” do its magic until the car drives and idles.
3- Here is where a repeat I’m not mechanic or a Tuner or anything similar. This is just how I got it working on my NB1.
A- With all of the above and the car in operating temp. (remember there is an enrichment “map” or something that works as the car is warming up).
B-Set the values on the “Air Conditioning Idle up” to:
- “Idle up off/on” to “On”
- “Idle up input” to “Table Switch”
- “Idle up Polarity” to “Low”
( ***Note My NB actual signal comes as a (+) not Ground. So this will activate the “AC Idle Up” when the AC is Off and turn it off when the AC is On)
- “Idle up duty adder(%)” to 35 (or something close. I read somewhere that as the compressors ages the load they have on the engine gets higher. Again I’m no mechanic, I just read it somewhere I don't know if this is true or not.)
C-With the engine running and the AC off I “Burned” the values to the ECU.
D-Adjusted the “Idle up duty adder” so that the car idled to 1500 rpm aprox. With the AC off.
E-Changed the “Idle input polarity” to “High” Burned it.
D-Played with the “Idle up duty adder” until the car idles with the AC on to around 1K.
Hope this can be of Help to any other Noob like me.
***Now I just need to find the “Compressor Delay” on TunerStudioMS v3.0.05 to adjust it. Does anyone knows where to find it?