Thanks for the replies!
The projects have 15 to 25 tracks, with a sure mic connected directly to the LCR input jack on the MAudio 1010LT and the Ibenez acoustic with an add on hole pick up, (LR Biagio) I think it says on it, also connected directly to the 1010LT via an input jack to 1010LT. A typical project may have 4 instances of Cakewalk TTS-1. I only use the first 4 timbral channels on each TTS-1, set the TTS-1 so that Timbral 1 goes to output 1, and set an audio track so that it picks it up in midi channel 1. TTS-1 timbral 2 is set to output 2 and is picked up in another separate audio track on midi channel 2 and so forth. I then end up with say 12 separate midi tracks, each with a separate audio tracks and a two live audio tracks for the mic which both use the same input from 1010LT LCR jack, and another audio track for the guitar pick up through 1010LT on a separate input.
I may run the kick on one track, the snare on another track, hi hat on another, and send the drums to the same bus. The bus goes to the master bus and the master to 1010LT analog output 1/2. Then instruments such as piano, banjo, etc. ore set the same way and sent to one bus called instruments, to master and out.
I use sonitus equalizer plug in a few tracks and Breverb in one bus with sends from a couple of tracks to it.
Now there are two variables. I did not have this problem before the upgrade to Sonar X2, and, I am not sure when I got the pick up for the guitar, but it may have been around the same time as the upgrade to X2.
I open each of the nine projects at the same time, shrink them down and highlight the first one, play along with it, then the second, play along with it, and so on. Then highlight one and the noise is not present at first and begins when I play the project. I can turn off and on the audio engine and the noise goes away, or, I can turn off the input echo on the live mic audio track or guitar live pick up track and the noise goes away.
This can happen on any of the projects, and all of the projects work fine but this noise appears at will it seems, tonight about once in 10 projects openings. Turning off the plugs or sends does not stop the noise.
Tonight the computor ran for a couple of hours before I tried this again, so intial set up processes are not the culprit.