The HFR was measured without the bahtinov mask. I was just using it for comparison of the focus.
The stars looked focused to me after I ran autofocus, I couldn't see a different between the autofocus run and focusing with the bahtinov mask.
This is my first time trying to do autofocus of any kind, so wasn't sure how else to compare. Perhaps like you said I shouldn't put so much trust in the bahtinov being perfect focus.
I'll try an imaging run with the settings I have and see how it turns out.
Thanks for the help.