...and if you've come this far, maybe you'd come a bit further. The Shawshank Redemption (1994)
Well, if you have a DC voltmeter, measure the DC voltage going into and out of the 5V regulator IC chip that should be bolted to the frame. There are 3 wires coming from the power supply board. The center wire is DC-. The left wire is the unregulated positive DC voltage coming from those capacitor(s) you replaced. This voltage will vary with the incoming AC voltage about 1/3rd or so greater...so around 15-16V DC for 12V AC on the track. The right wire should be regulated 5V DC and measure at, uhh, 5V.
Obviously if you're drawing 3 Amps at 12V AC (36 Watts) with no activity, this means the 3 x 12 = 36 WATTS is going somewhere (cooking something). But I figure you ought to be able to make the measurements in a few seconds before something melts.