If you're soaking in 91% isopropyl alcohol, be sure to do it in an enclosed container because alcohol that dry instantly starts absorbing water from the air and becomes quite diluted, thereby losing its strength.
I've had success on recent Athearn and P2K models using 91% isopropyl alcohol. For some older stubborn Atlas models, I've used Scalecoat Wash Away (for plastic). In either case, I soak overnight and hit it with an electric toothbrush the next day. I strain the alcohol or Wash Away through pantyhose (you should have seen the look on my wife's face when I asked for a pair of hers!) back into the original container when I'm done. If necessary, I'll soak the model a second time (and to be honest, it usually is necessary).
Whatever you do, I'd recommend against painting over the original paint, especially any Santa Fe paint job. The yellow, no matter who the manufacturer was, is invariably heavy and will obscure detail with any additional coats of paint you add.