Even with really fresh paint that's unusual. Fresh paint is often polished (and sometimes even wetsanded/compounded) by the paintshop soon after it dries and long before the customer ever sees it.
I put glazes, usually Meg's #5 on two-week-old paint quite regularly. The glaze is nonabrasive so if you use it with a pad that's functionally nonabrasive (i.e., a finishing pad) you oughta be fine.
It *does* sound like a contaminated pad to me, or maybe the RMG had dried out on the pad and somehow caused it :nixweiss Note that I'm not first-hand-familiar with either that pad or RMG.
I'd probably let it harden some more before you try to correct it. If you try now, use something *VERY* mild on a finishing pad. Don't use something with as much bite as, say, Meg's #80.
I've used Griot's Machine Polish #3 on ultra-soft fresh paint with good results.
I'd just glaze it for now if it were mine. Try applying the glaze by hand, *very* gently. Keep an eye on the product, look for dried out clumps.
Every week or so the paint will get a little harder. It'll reach maximum hardness for practical purposes long before it completely finishes curing/outgassing. A month or six weeks from now it oughta be hard enough for pretty normal, if still kinda mild, correction.