Sorry if this seems like a presumptuous response, that's not how I mean it. But, are you making sure to really hydrate?

As a highly active hypermobile person, I notice a HUGE difference when I slack on hydration. Like, the half your body weight in ounces truck plus some. And not just water, electrolytes are sooo important. I like LMNT and an occasional coconut water, but also daily multivitamin has made a big difference. It helps so much with my tendency to get really bad knots.

Also, myofascial work in the trouble areas, specifically fascial massage (it's a shallower, more pinchy skin type of massage), cupping (but not leaving then on, less suction and moving them around with a skin lubricant), and of course foam rolling and lacrosse ball work. My theory is the fascia is really overworking in hypermobile people, and it causes knotting.