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Is it possible to measure or some other way find out the difference in clock/time between two windows 2k8 r2 machines?

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Yes, install ntpd. Then add to server your Windows machine. Then run ntpq:

ntpq -p
     remote           refid      st t when poll reach   delay   offset  jitter
+x.x.x.x          x.x.x.x        2 u 1011 1024  377    0.632   -6.836   0.072
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