Have you polar aligned it and built a pointing model as yet? And cold starting it wipes the slate clean. I had weird problems like yours when I got started with the mount. But the Gemini does need to know where it is and where the mount goes when given a target. And if that isn't your cup of tea, its possible to build the pointing model through a plate solving tool like Astrotortilla (what I used). You tell the mount where to go... take an image and have it solved. Most of these tools will solve the image and slew to a less wrong location. Its relatively painless.
