Hi Leachdude, I had/have the same thing with a couple of setups I've done. They were on almost identical hardware which makes me think there is something going on that HyperPin doesn't like. Name a couple of the tables you're having this "go slow" problem with and we can see if ther are any the same. I've no idea what is causing it but it might help to kmnow that it is not uncommon.
Having said that, some of the tables that either run really slowly or don't show a DMD respond to a reset (F3) so it may be worth trying that. You may have the press F3 a few times for it to be detected but they usually come good and then play perfectly alright, that is until next time you run them from HyperPin.
Also, what version of FPLaunch are you running? I was running 1.295wip4 and then swapped to 1.295wip9 and noticed that this problem cleared up on quite a few tables.