Gabe;
I’m glad you jumped on the overtraining quickly. I hope you’re feeling fully recovered. You need to be before diving back into training. The single most important component your plan needs to include is the gradual build up of volume at low to moderate intensity. You’ve already been bitten in the butt by adding too much intensity. Do not make that mistake again. For runners the ME phase should come during the early base weeks not in the final specific phase. The ME work will trash your legs and you need plenty of time to absorb that training. Give what little I know about what your training I recommend a conservative volume progression for these coming weeks. Especially until you have proven to yourself that you are out of the woods fatigue wise.
Scott