Premiere Pro CS6 reconforms video mid edit

Hi All,
Having a problem with my Premiere Pro reconforming video in the middle of my edit. It is incredibly inconvenient as it takes hours to reconform and I am unable to edit or render video while waiting.
Also, my player shuttle will stop functioning between preview and program windows and will not work again until I force quit and reopen... Which means I must reconform video once again.
This is happening 3 or 4 times per eddit adding hours of time to each project.
Any help would be greatly appreciated!
Thank you!

Hello Kevin,
Thanks for the reply!
I was editing from and external (though not shared) hard drive but having run into this issue I started importing and editing files straight from my desktop. This has not solved the problem and Premiere Pro continues to reconform my video randomly.
I have Premiere installed on my old MAC laptop and my new iMAC. Strangely, the issue only seems to take place on the new iMAC.
I purchased CS6 as a download through the Adobe website. Is it possible that it downloaded or installed incorrectly?
Thanks for your help!

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