I would recommend pursuing the simplest solutions first. For me, even the slightest change in binding angles can bring about these slow pains that build up around the ankle or knee, especially in the front foot if it's exacerbated by too narrow a stance where you can feel the front ankle being slightly rolled or pressured against the outside of the binding.
With the back foot I know I can ride -12 for 100 days, but -15 will cause knee pains after day 20. I would suggest looking at the most obvious forces at play on that joint. Footbeds have never "fixed" anything for me. Although I do love my Reminds.
Make sure your stance is wide enough that you can feel the greatest amount of pressure being exerted right through the board and into the ground. If you are a little too narrow you will feel some pressure or force being applied to the outside of your bindings, especially when your knees are fully bent and you are in a dynamic riding position. Some people like this for transmitting more control through the bindings, but I've found it to cause pain in the exact region you are describing if it's not dialed in just right with my stance width. And it's something that might not show up right away or even within 25 days of riding. That's why you have to pay as much attention to your stance as a golfer does to his.
Last edited by tonicusa; 04-02-2014 at 07:32 PM.