I used to get the same problem, but the bad news is, the shoes aren't the problem at all. You get sore in the achilles when your quads, glutes, and the rest of your leg and body are disproportionally strong compared to your achilles. You get sore, and you develope a bursitis-like pain, and you can get a calcification like a bone spur, but the real problem is higher on your body. The real thing to do is have a good coach look at your form, your training, and your strengths, and develope for you a plan to add balance- add coordination- and decrease the amount of pain you're bound to feel from having chronically sore achilles.
For example, sprinters can tear- actually rupture- their achilles, and they never blame their shoes. Football players, too. So, for you, maybe if you think of yourself as a skinny distance runner, you're actually a lot stronger than you thought!