Well, something is rubbing somewhere. The question is what and where. The first thing that comes to mind is shoes that are not well fitted and/or have "hot spots". If your shoes are a little narrow for your foot, it is easy for them to rub at the arch (I presume that's what you mean by "the inside" of your feet. If the shoes are not long enough (1/2 to a full size larger than your street shoes), end-of-toe blisters are common. Hot spots are basically something inside the shoe, a seam, some odd stitching, an edge of the insole, etc., that rubs (I have had all of these in different shoes). Socks are another source of blisters. Hopefully you're not running in cotton socks, which retain moisture and are more prone to friction and bunching than synthetic materials. Toe socks are another help in minimizing blisters on and between your toes.
Of course, you have to give them time to heal. And the newly healed skin tends to be softer and more prone to more blisters. Meanwhile you have to figure out what is causing them and fix that. Lots of long, slow miles may or may not be in your future. But I suggest you try to find the cause of your blisters first.