CS4 - auto aligning files in a stack or panorama. Hit or miss?

battletone

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Is there a reason why CS4 seems to be hit or miss on doing this? It seems that when doing panoramas, sometimes it will align/rotate/distort as needed, and other times it will just leave them as is. When trying to stack some star photos and using CS4 to auto align them for a Median layer, it just wants to leave them as-is without rotating them at all.

I have noticed on Panoramas that smaller resolution files are easier to get a successful aligning of (and for that matter, auto masking too), but even large files seem to be more successful with fewer files. Is this a RAM or CPU issue? My computer refuses almost all inputs from me while it is working (I need to build a new one soon), but if I leave it be it will do its thing like it should.
 

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