Hi Heather,
You might try wrapping Cad or Twinks up in a large bath towel (start at one end of the towel and roll them up in to a bunny taco), leaving the head exposed. Then place the bun on his back between your thighs, and pulling out one paw at a time and clip the nails quickly.... I find if I sit in a chair I can put the bunny's head down by my knees, then position the bun so that the head is lower than the butt, the bunny usually quits trying to get away....
It takes courage sometimes!!!!

Good Luck!