Your question isn't going to get answered with as it's has too broad a scope and is vague on where you are having problems.
Have you read the documentation on the 3A DSP kit?
Is there something specific that you don't understand about downloading an FPGA image? JTAG should work and is the easiest method.
You can find the clock pins used on the schematic of the kit, or in the documentation. Have you even looked at the schematic of the kit?