Ryan,
If you want to do away with the hand controller you need to use EQMOD - I assume you are not using this at the moment and that you have a Synscan version handcontroller?
If you go to EQMOD you need a USB-serial TTL cable to connect the laptop direct to the DB11 plug on the mount. This is pulse guiding.
http://eq-mod.sourceforge.net/reqindex.html
you need one of these cables to do this:
http://www.starstuff.com.au/page56a.html
you can make one if you are ok with a soldering iron
http://www.dontronics-shop.com/ftdi-...ter-cable.html
You can also use pulseguiding and EQMOD via the cable you have into the handcontroller - you need to install EQMOD on your PC and put the handcontroller in PC direct mode.
Alternately you can keep the hand controller and use ST4 guiding through the autoguide port on the mount however you will need a GPUSB to go from the usb connection on the laptop to an RJ12 cable which plugs into the autoguide port on the mount.
Hope this helps.
Peter