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Orthotics make the correction for your foot as well.
Have you looked at the rebuilding your feet videos?
These could be part of the solution.
I would have someone video tape you running so you can see exactly what you are doing/how you are landing/ where on your foot you are landing etc.
A longer warm up may be something that helps. A dynamic warm up and doing some drills to prime the joints/movements you will be doing when running.
Issues with the calf are usually from having an active landing. The heel isn’t lightly touching the ground so it is always active which is the problem. Make sure your heel is kissing the ground.
Correcting the deviations with your running technique will solve the problems you are experiencing.