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The only correction to your alignment that you will need to do is due to the weight change of the OTA and the physical process of swapping OTA knocking the mount around or settling the mount/tripod in a slightly different alignment.
On your new pier, with your Losmandy fully "locked down" in Alt & Az, I'd expect you would need to do no correct in practice, even though it may very slightly get knocked out by the swap.
Certainly alignment of the OTA won't matter, you can have it pointing at 45 degrees off wack and as long as the RA axis of the mount is still aligned that's fine.
I think you're more likely to encounter tracking differences due to weight/balance difference and the gears, etc handling the different OTA's differently.
Roger.
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