Shawn,
I can certainly understand your desire to use the same type code with all the machines that you have to operate. (Those of us who have spent significant time programming have our favorite editors and favorite compilers. No matter what else is on the market, we always install the tools that we are most comfortable with on any new workstation.)
If I understand correctly, you already have a PRT. That means that you already have the stepper motors and a stepper motor power supply. To convert to G-code all you need to do is to buy four Gecko stepper drivers (the G202 model or G203 model would both be perfect), a breakout board (I use the PMDX-122 but many other brands are available), and a copy of Mach 3. That's it. Other than an hour or two to wire things up, you'll be ready to go. If you really push your motors, you might also consider adding a large capacitor (10,000 uf minimum), or even adding a linear power supply using a simple toroid transformer. If you choose to go this route, you'll be up and running in a minimum amount of time and at a cost of about $850 - but you won't be able to use Shopbot software.