Yes it's hard to help when you haven't told us anything concrete.
Which firmware are you using? Compiling yourself or using a pre-compiled .hex file?
Did you edit the firmware before uploading it?
Which controller software are you using? Compiling it yourself or running from a pre-compiled binary?
In the controller, can you connect to the arduino ok? Do you see "READY" appearing in the console log (ctrl+c to open the log)?
When you issue the "set home" command, do you see any response message in the log?
Does the pen lift work? Pen up / pen down.
The motors should move slightly, and lock when you send a "set home".
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