Johnbee58, I hope it all works out.
It sounds like you have a question about Simple Instrument Tracks, so I will try to help. Forgive me if I am saying stuff you already know.
1-An external synth requires two tracks: a MIDI track to send it the notes, volume, etc. and an audio track that plays the sound coming from the synth that is plugged into your interface. Sonar does not know these are connected or are part of the same instrument. It is up to you to name them and keep them straight (e.g., Motif MIDI, Motif Audio).
2-Virtual instruments are the same, except that since both the audio track and the instrument itself reside in your computer and in Sonar, Sonar knows the MIDI and audio tracks go together. If you mute or solo one, the other follows along.
3-When you add a soft synth (virtual instrument) in Sonar, Sonar asks you if you want a Simple Instrument Track, or separate audio and MIDI tracks.
4-If you choose Simple Instrument Track, you will just see one track in Sonar, but in Inspector there will be tabs so you can look at the MIDI or the audio parts of the track. You can also highlight the track, right click, and ask to split it into an audio track and a MIDI track (but Sonar will still know they belong together). If you split the Instrument track, you can also have Sonar put them back together again later if you choose.
5-Instead of choosing Simple Instrument Track, you can tell Sonar to create separate audio and MIDI tracks. You can also choose to have multiple audio tracks and one MIDI track which is a good choice for drums since you may want separate tracks with separate volume, reverb, and EQ for kick, snare, hi-hat, toms, cymbals, etc.
A lot of people here always use separate tracks instead of Simple Instrument tracks. I am mixed. I use Simple Instrument Tracks for single sounds like Piano or Bass. I use separate MIDI and audio tracks for drums or string sections when I want to control each sound separately.
For RealGuitar, I have two MIDI tracks and one audio track because I want notes for chords on one MIDI track, and keyswitches for strumming on another track. I do that by telling Sonar to create a separate MIDI and audio tracks, and then cloning the MIDI track before I enter any notes.