General joint soreness after months of hard training.
I tend to look at adrenal fatigue issues, as in the adrenals are not making enough cortisol/cortisone (the body's strongest anti-inflammatory) to keep you out of discomfort.
I worked with Josh Everett on this (he gave me permission to say this) before last year's CF Games. Obviously something worked. He did say his adrenals were burned out for several weeks after that intense event (his account).
The sign that this is adrenally-related goes hand-in-hand with your account of what happens in your athletic endeavors. Bell rings or set starts, adrenals kick in what they can, you feel better for a little while. You start resting, the pain settles back in.
Strikingly common among CF and MMA types.
I use the Adrenal Stress Index (ASI) test to check if this situation is occurring.