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Hi John,
I'd suggest using another method to re-confirm PA, like Alignmaster.
Don't go by what one software says when you are pretty sure your PA is close.
I did that mistake at snake valley, where I was pretty closely aligned, but then ran Polealignmax which uses plate solving, and ended up with an error of 5 degrees. took me 3 hours to get back on track.
so before adjusting as per pempro, try monitoring drift in phd using the main scope at the meridian and e/w and also measure using alignmaster.
have you checked the location settings in pempro as well as timezone settings? not sure if they'd affect, but its possible.
Cheers
Alistair
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