Hi Howard,
I use twin FT-817ND's and haven't seen what you describe:
I adjust the receive cat till I hear my voice proper aprox -1.3 kHz on FO29 I reset it to 0 then adjust the cat for transmitter to +1.3kHz I click change/store data file button,then click uplink cal button I restart SatPC32 and try again on FO29 now I am out aprox -2.6khz
There are two things I can think of that could be causing this. One, I never actually adjust the receive calibration, I do all the corrections with the uplink calibration box (the right-hand of the two) in the CAT sub-menu. Once audio sounds correct, I then store the new settings.
The other is that since the Yaesu FT-8x7 rigs don't update the TX frequency during transmit, be sure you unkey between test transmissions to let the new CAT settings get into the TX radio. I'll do something like "KB5WIA aligning", then unkey, set uplink cal up or down accordingly, then retransmit and try again. I also use the 5X data rate so that the frequency update is a bit quicker.
Only other thing I can think of is to make sure your keps are updated, and your PC clock is updated to the second. Even a few seconds difference can make the bird appear to drift > 1kHz in a few minutes (the time it takes to calibrate).
Good luck!
73 de Dave KB5WIA / CM88 FT-817ND x 2, Elk Antenna