I've got quite into recreational running over the past 8-9 months, having started out with some extremely cheap trainers I bought off-the-shelf at a large sports store. Last week I finally got round to heeding the wisdom of getting my gait analysed and fitted with some proper shoes at a local shop that a number of friends have recommended. Being quite flat-footed and tending to over-pronate they kitted me out with some stability shoes (Asics GTS-1000s). However, having gone on some short runs since (3-6k) I've been getting a lot of twinges. Generally it's just a lot more exhausting during the run, and getting blisters on my arches if I go beyond 4k or so, but in the hours afterwards I'm getting some discomfort on the inside of my heel up along my achilles, the inside of my knees and round to the bottom of my hamstrings.
I've spoken to the shop on the phone and they've suggested I keep trying a few more light runs, and if necessary go back and get them changed. But I don't really want to change them if I'm just going to get the same issues with my next shoes. Is this a normal experience? I have wondered if the last few months have got me into some bad habits with my technique which I need to get out of, but I'm not sure what they would be.