I've had a couple o bad days with equipment not co-operating. I had to do a full Return to Factory Settings, and then adjust all my preferences to suit.
However, one problem; When I save with patches & harmony,(AltF2) all of the volumes save except the THRU channel, which always saves as 90, no matter what volume I nominate.
I know it's probably in Preferences somewhere, but I can't seem to find it.

Any ideas?

It's okay, I've found it.
When you save a song there's a check box for Save/Load Thru setting for songs.