Some ideas that may or may not help:

A shorter, quicker stride might help. If you are reaching your foot out too far, you are essentially braking and re-starting with every step. The energy that you're "wasting" by braking is being absorbed by your foot, ankle, knee, hips, back, etc. Kind of like KOPS on the bike, you want your feet more under you than in front of you when they strike.

I'm not going to argue one side or the other for where your foot strikes - it's almost impossible to avoid some sort of heel strike in normal running shoes, anyway. But listen for noise. if you sound like you're pounding, you're wasting energy - and your body is absorbing that wasted energy. Think light and quiet, like you're chasing prey

Think about running tall and keeping your chest open. Some people lean forward as they run, which affects the weight distribution on your feet & legs, and can also cause the pounding effect.

And one thing some runners swear by is practicing balance poses. Tree pose in yoga, for instance. They'll strengthen lower leg muscles and help control your stride.

Or...you could be feeling pain because of shoes. There is, in my opinion, a lot more guesswork than science behind shoes. I don't believe there is a "magic shoe" that will fix medical problems in most cases - by switching shoes, you're usually treating a symptom, and not the cause (form). However; I do think that shoes can cause problems, for example, if you're wearing an ultra-stability type shoe and don't need it.

Unfortunately, I don't know anything specific to help the pain you're having. In my experience, most pain that occurs on both sides of the body is from "heavy" running or overstriding - and anything one-sided is generally either from a physical abnormality (different length legs, scoliosis, etc) or from always running on the same side of a road that's cambered.