I used to have similar issues with the balls of my feet and I found an insole with more arch helped me. On all my shoes riding and running I have an assortment of various insoles that give me more arch and it certainly helps with any issues that shoes cause me. I did have a custom insole made up for my running shoes but best found using On insoles that have more arch and placing metatarsal domes under them in places that feel the best.