Kamilion
I hear what you're saying Mike, but latency and SONAR cutting off the waveform seems like to different issues.  The track plays back fine with no delays it just cuts off the initial attack.  For instance, when I tried to record the kick it only plays back the sustain part of the kick and not the attack
 

Heck, I'm just throwing out a guess... there are a lot of things I'd want to know before I could figure it out with certainty, but the premise of my suggestion is based on the idea that what you hear when you are recording alongside already recorded material is synced by compensating for the playback delay... then when you hit stop the freshly recorded clip is synced again to the other tracks... and this is done by sliding along the timeline to an earlier position so that the next time you hit play all the tracks in the project that are recorded play in sync.
 
The waveform drawing that is made during recording is an approximation, so to speak, and when you hit stop it is redrawn in it's synced position.
 
This is why I suspect it has something to do with the latency compensation, or perhaps your latency settings.
 
Good luck.

I hear you Mike, it is all a part of troubleshooting :-)
 
John, the PDC button isn't clicked.
 
Click on the youtube link above, if possible

The screen shot doesn't have enough info...
 
The button in the Control Bar is PDC over ride, it's for a special circumstance when you are using hardware monitoring:
 
http://www.cakewalk.com/D...help=Recording.23.html

I did try it, it didn't make a difference with it on nor off..it still does the same thing

Here is what I'd be looking at:
 
http://www.cakewalk.com/Documentation?product=SONAR%20X2&language=3&help=Dialogs2.056.html#1597981
 
Specifically the notes about:
 
Record Latency Adjustment (samples)

Hey Mike, I appreciate your time on this.  Those are my exact settings in your link

It seems too much of a coincidence that you have four buffers at 240ms and are losing "about a second". Does anything change if you change those settings?

Kamilion
Hey Mike, I appreciate your time on this.  Those are my exact settings in your link

I am suggesting that after you read the section on 
 
Record Latency Adjustment (samples)
 
That you run the loop test they describe and see if "0" is the best choice for you.
 
If it is not there may be a couple reasons why... on my system the reason is that the Hardware simply doesn't report the total latency so I have to make a supplementary manual adjustment to make it all work well.
 
You may find that there is another reason, and you may or may not have to adjust it manually or you may or may not be able to solve the reason your sync isn't synced. You'll just have to see what's going on, and the loop test is a good first step.
 
 
 
 
 
 
Which brings me back too:
 
What Effects are in your project?
 
What happens if you remove any and all effects and try to test the sync? If the results are different when you use effects and when you don't you can learn when and why some effects mess with latency sync.
 
Good luck.
 
 
 
Finally, are you running WDM, MME, or ASIO audio drivers? 

Any progress?