The patent is quite specific, it relates to the icons on the dock resizing when the mouse pointer is near, which was a really neat effect back in 1999 or whenever it was first shown. AmiDock doesn't do that, so it is perfectly fine. I don't think that Apple would care though, they just want to protect themselves against copycat clones.
The patent includes the resizing algorithm and other concise behaviours that together make up the patent.
