You may want to try using the Mix Recall function. I have saved one Mix Scene for tracking, and one for mixing. The tracking scene has only a few plug-ins turned on, mostly just guitar plugs (Amplitube). On this scene there are no ProChannels on, no Bux FX, and no track FX except Amplitube on a few tracks. For tracking in this scene, I just lower the settings on the interface to 64 or 128ms, then record the part.
Once the part is recorded, I save the scene, save the project, then switch back over the Mixing Scene. With this scene, all the PC modules are turned on, as well as all the track and buss FX.
This is one of the best features in Sonar, imho. I use it every day. It works great if you need to add a new part to a song, or re-do an existing part.
~Jeff