You should start with the Introduction and How MegaSquirt works from http://www.megamanual.com apart from that any book on modern electronic fuel injection would be a good start to get familiar with the basics. Also I had to do a lot of reading about how the factory EEC-IV system works.
Here are some links to various MS-II resources:
http://www.megamanual.com/
http://www.msefi.com
http://www.bgsoflex.com/megasquirt.html
The first thing you need to do is source a factory ECU that will physically plug in to your car's wiring loom. It doesn't have to work it just has to have a case and connector that is in tact. I managed to get three of them off a friend for nothing.
Now you just need to get it open and take the circuit board with the connector out. There are some clips to hold the FE Transistors in place on the side of the case to dissipate heat, you just pry them off with a screw driver. Be careful though they spring off with quite a bit of force. Next you need to unscrew the bolts holding the circuit board in place and also there are two legs soldered through the board that you need to cut with a pair of side cutters. These hold the plate right behind the connector in place, and will prevent you from taking the board out. They need to go.
Once you have done these steps you can wriggle the board and connector free. I found that there is a lot of lacquer sprayed on the board to help it be more resistant to moisture. The lacquer runoff makes the board stick to the casing and you may need to pry it in places to free it fully.
Once you have just the circuit board with the connector still attached you need a soldering iron and some desoldering braid or a solder sucker. I prefer the desoldering braid myself, I find it much more effective. You will need a drill with a 5mm or 6mm bit, you need to drill out a rivet that goes through the circuit board right behind the connector. Now you need to heat the soldering iron and then hold the desoldering braid between the iron tip and each joint for the pins of the connector on the circuit board. One by one you will soak up the heated solder from each joint with the braid. I found I used about 60cm of braid to get the whole connector done.
Here is what you should be left with at the end. All ready to go...
NOTE: Assembling the MS-II circuit board is beyond the scope of this tutorial as there is plenty of information on doing that at http://www.megamanual.com
EEC-IV Connector and Wiring/Pin Labels
NOTE: Most of these pins and their functions won't even be used with the MS-II.
I have worked out the final wiring list to connect the MS-II circuit board to the back of the factory EEC-IV connector in the case. You will notice that there is no listing for the MAP sensor input just a brief note about replacing the factory one with the MS-II kit supplied one. Mounting the MAP sensor inside the computer right on the circuit board and there can be a hose barb fitting installed in the side of the case for hooking up a vacuum/boost line from the manifold. The MAP sensor included with the kit is good for 21psi which is plenty for my car and pretty much every Falcon I imagine. There is an upgrade available to a 44psi MAP sensor, it's called MAP Daddy and is available from http://diyautotune.com The MappDaddy 4 bar map sensor upgrade for the MS-II includes a second map sensor for realtime barometric correction. It is available here: http://www.diyautotune.com/catalog/mapdaddy-sensor-with-barometric-correction-p-117.html You get all the bits required to mount the MAP sensor in the ECU box the two sensors are surface mounted (as you can see in the link I posted above), a barb fitting, tubing and a resistor that is required.
Using the table below, each pin number on the EEC-IV connector is simply wired to the corresponding number on the MS-II connector.
This info thanks to: oneredED
Another option for using the MSII ECU is installing the MSII Extra software and code on it. It has integrated features (like 2-step/launch control) that the B&G 2.88 code does not allow for in standard form. Oh, and other little things like 16x16 tables rather than 12x12, and staged injectors (aka 1 small set for off boost driveability, then additional big set for 'on boost' fuel supplementation).
http://www.msextra.com/ms2extra/MS2-Ext ... difference <- go down to feature table
http://www.msextra.com/ms2extra/ <-homepage
http://www.msextra.com/viewforum.php?f= ... 5b4cb6c724 <- the forum
http://www.msextra.com/ms2extra/MS2-Extra_TFI.htm <- if you're running MS2E on a falcon, you'll need this.
