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Hi,
I think you mean 300 seconds, not 3000 seconds. Anyway I think your polar alignment needs to be better. What are you using for guiding, whatever it is, it normally gives you an idea on screen what sort of corrections it is making.
Ideally they should be under 1 pixel. If they are and you are still getting elongated stars then your guidescope is not seeing what the imaging cd is seeing and you should look at tightening everything up.
Paul
Edit:
If it is really 3000 seconds or 50 minutes then probably the alignment is pretty damn good and you should go back to 5 minute subs, however I dont see enough data for a 50 minute sub so am assuming you meant 300 seconds.
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