Health first. You can't make gains when you're sick.
Having said that, if you do choose to contine don't feel bad about being reduced to bodyweight squats and the like.
If you've lost 1lb/day or thereabouts, observe a resting heart rate 8 beats above average or anything close to it or just feel too drained.... you get a waiver on workout #3.
I'll leave it up to you..
With respect to your questions:
Does anyone know if there's a correlation between overhead pressing, and rotator cuff damage?
A. No, not unless you use poor form or have a pre-existing injury/aren't flexible enough.
This is what I was told by my baseball coach, and as a result my team is discouraged from lifting weight above their head.
A. Baseball coaches aren't strengh coaches. Tell him this... you'll probably wind up cut from the team but that just leaves more time for BP

Also could I fit heavy, weighted dips in my EDT blocks, or since I would go heavy would it constitute as my BB lift?
A. You could and it's an excellent alternative. When you move the body and the weight through space the CNS/brain are at a much higher activation level. You won't be able to brag "I bench X amount of weight" but dips are well respected man makers. If so inclined, they're a terrific substitute. In some ways vastly superior!
Heavy as in 50+ lbs on a belt. Dunno if anyone else would call this heavy...
A. Heavy is a relative term. That wouldn't be heavy for me but it'd be heavy for you and plenty of others. My heavy is around 150lbs. That'd be a warmup for other people, so I'm careful not to get too high and mighty
