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Is there any chance you're running Kaspersky anti-virus software? Write N Cite and Kaspersky are not compatible, and I've found a webform where someone discusses very similar issues: reporting issues, re-installing, everything working find for awhile, and then having everything slow down, as too much of the CPU is being used:
http://forum.kaspersky.com/index.php?showtopic=161366
If you are using Kaspersky, there's not really any solution; you will have to choose which program you need more! If you're not running Kaspersky, please let us know and we'll continue troubleshooting.