Request - Help with Metronome Count-In Causing Misaligned Takes

I was just trying some "loop audio recording" and found that if I have the metronome on with a two measure count in on record, each recorded take is offset from the original scratch track.
 
Here's the scenario:

• set the metronome to have a two measure "count-in on record"
• set the record button for "comping"
• create an audio track and arm it
• set the now time to measure 3
• press the record button to begin recording (the metronome should play a 2 measure count in before the track begins to roll)
• record a scratch track for a few measures and stop recording after a few phrases
• disarm the track you just recorded
• set the loop points to start at measure three and end at a logical point in the scratch track so it seamlessly loops to the beginning of the scratch track starting at measure 3
• create another audio track, select and arm it for record
• ensure the now time is back at the beginning of the loop (should be measure 3)
• press the record button to begin recording on the newly created audio track (the metronome should count in for 2 measures before the tracks begin to roll)
• play (in time) to the scratch track, recording to the newly created audio track for 4 loops and then stop recording
• show take lanes on the newly recorded track
• select the take lanes to play each one and note that each take lane is "out of sync" with the scratch track

If I turn off the metronome "count-in on record", set the count-in measures to 0 and perform the steps above, the recorded take lanes are in sync with the scratch track.
 
Due to the observed change in behavior when I turn off the metronome and count-in, it seems like this could be an issue while loop recording with the metronome on and count-in measures set.
 
I'm wondering though, could this be a problem with my setup or has anyone else had this issue?
 
Incidentally, I'm running Sonar Producer X3e on an Intel i7 4th Gen (2.7 GHz) under Windows 7 Professional 64bit with ASIO drivers connected to a Roland Octa-Capture at 48kHz/24bit.  My typical round trip latency is about 6ms (289 samples).
 
Thanks in for any input in advance,
Paul

Thanks for the report, we'll look into this.  It's great when detailed recipes are provided.
 

Anderton and Keith Albright [Cakewalk]:
 
Actually, thank you!  Your attention to my post has far exceeded my expectations!
 
Paul