I am curious as to how long a thread you are using as well as the thimble contacting the thread as you push the needle. A shorter thread is better, about 18 to 20" long. The longer the thread the more it wears as it is pulled through the fabric. I had the same problem as you and over time just naturally adapted to nudge the thread out of way of the thimble. I am a left handed quilter and do everything opposite.
Keep stitching and you will eventually develop your own style of moving the needle.
peace