Hi,
I give you my opinion, but just take it as an advise, nothing more...
The controller board you are using is manifactured for a Mach3 use, as is using a parallel port, and is tuned for the latency and other problem that the parallel port connected to a PC have in real time running.
Your new controller is much much faster and have nothing to do with this board
You need to use separate stepper driver for each axis, and you can find them really cheap on ebay if you want to start with an entry model.
I would suggest you to buy a good one once and forever, so your system is then matched as it should be, quiet and running cool.
Then get rid of the parallel port once and forever, as this is the pourpouse to buy that kind of controller...
I will make a short video of mine running with digital stepper driver
http://www.ebay.co.uk/itm/EU-Stock-4PCS-DM556D-Digital-Stepper-Motor-Driver-50VDC-5-6A-For-CNC-Router-/142190444856 (those are mine, but you dont need that much, you can find digital ones and much much cheaper.
Those one are perfect
http://www.ebay.co.uk/itm/CNC-2DM542-Microstep-Stepper-Motor-Driver-4-2A-Controller-24-48V-DC-Nema17-23-34/251117211299i am happy with that and no missing steps or heating or noise, strong holding torque and auto-tuning firmware..... just have a look if you have time.
Once you have built the controller it will work even for future machines if you upgrade the chassis.
Any comment is fully apreciated as usual
Regards