Ok, you need to track down the wires for the wipers in the RB harness where you cut off the plug to the RB wiper amp. Then, you have two options: 1) repin the F3 plug or 2) cut the RB F3 plug off and replace it with the KA and do your rewiring in the process.
You need a multi-meter with continuity testing ability which 99% of them have. Then, go to where you cut the RB wiper amp plug off of the harness. Place one probe on that wire and then poke around on the F3 plug until you find the other end of the wire. It will most likely be the same color so check those first to save time. Repeat until you know the pin locations of all the wiper-related wires. Compare to my guide and then describe where there are differences. Sounds like your #1 pin on the RB plug is somewhere else. You just need to find it.
Also, eh? has posted the RB25 engine harness diagram on his forum. This is the holy grail of wiring the RB. Save it to your computer. The wiper amp plug is the 8-pin plug with 7 wires on the top middle of the diagram.
http://www.rbforums.org/pics/P...m.gif