I know that there can be several unused plugs on the harness from different options and drivetrain configurations (like manual or auto), perhaps that's what those are...
As for the engine swap, I'd look at the identification plate on the firewall on the drivers side. That will give you the engine code, transmission code, diff code, as well as paint/trim color. I think in the FAQ there's a brief description of how to read it, I'll see if I can find that and put a link in here
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1989 7MGTE R154 Targa Top White Package w/Blue Interior
Driftmotion 57trim CT26, Upgraded Intercooler, 2.25" Hard Pipes, 3" Turbo Back Exhaust with Test Pipe, HKS VPC w/GM 3 bar MAP sensor, APEXi S-AFC, Walbro 255lph fuel pump, ProSport EVO Series Boost / Fuel Pressure / AFR gauges, Lotek a Pillar Gauge Pod, HKS Type 0 Turbo Timer, Eibach Lowering Springs, Tokico Illumina II TEMS struts, custom powder coated Motegi Racing TrakLite wheels
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