Two weeks in and it's getting a bit better! My knees/calves whatever were significantly less sore today. I've been spending a lot of time researching running techniques, exercises and stretches and they seem to be helping a lot.
Ran faster again today. Did the sprints for a whole 5 minutes this time. So much easier this time around.
2.25 miles run
400 each back/sit ups
20 push ups, but I plan on doing more before work.