MSO does not
directly support AVRs and pre-pros with multiple sub outs. The assumed hardware setup is described in a brief way in the
Hardware Requirements section on the home page, and in a lot more detail on the
Details of Configurations page.
I reckon you'd want to connect each balanced sub out straight into the Hypex balanced in. If you could arrange for all the sub out signals to be either exactly the same, or differ only by a delay, over which you have full manual control, that would work. If the sub outputs were all exactly the same, you'd use delay on the Hypex to control the relative sub delays. That might be better.
MSO is compatible with Hypex PEQs, since the original beta tester in 2015 used a Hypex PSC2.400 plate amp. When specifying PEQs in analog format (Q, center frequency and boost/cut), it's important to recognize that there isn't a single standard definition of Q. I wrote
an article about that.
As mentioned in
post 1445, you could use the Audyssey automatic sub EQ as a surrogate for the shared filters of MSO, provided you could keep it from messing with the individual sub delays and levels, and force all sub outputs to be identical.
I'm not familiar with Audyssey, other than what I've read in the MultEQ-X manual. I'm a two-channel guy, having been reluctantly sucked in to supporting the HT world. I had a brief look at the AV 10 manual, but when I saw it was 342 pages, I bailed.