That's one of the reasons I quit CrossFit years ago -- I was always too sore to run! (Or, to run with any "oomph".) But you're younger and probably running & lifting more consistently than I was back then, so hopefully you'll figure out how to manage it all. :-)
I was imagining that I would be doing strength training consistently enough that I wouldn't have days where I could barely walk. I'm not quite there yet, though it is generally better. I don't really have the energy for any hard running anyway, so it's no big loss!
Running on fatigued/sore legs is good ultrarunning training!
I've been surprised that I've not been too sore. My issue is shoulder flexibility though, so my upper body has been way more sore than anything else. It sure felt nice to be fastest on the run part of today's workout...