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G'day Brett,
So long as you don't try to slew the Mach 1 ought to just keep tracking past the meridian. If you want to be sure you can set a meridian delay from the driver or from the hand control. As you suggest, tracking past the meridian is fine so long as you don't run the scope or camera into the tripod.
If a flip does happen you will need to ensure you get the object back in the frame. This is where plate solving comes in really handy! You can rotate the camera by 180 degrees if you want but you don't really need to. PI will register the subs even if they are flipped. You will need to acquire a new guide star and re-start guiding.
I do flips in the middle of imaging runs all the time. It's not that big a deal if you're prepared for it.
Cheers,
Rick.
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