Strange things can happen when you use a mono effect on a stereo track or vice versa. Usually, the tipoff is that the sound leans to one side, or can't be panned.
To further complicate matters, a track may convert from mono to stereo or stereo to mono as it's being processed by effects. For example, if you insert the Sonitus Delay into a mono track, its output is stereo and the data stream will be treated as stereo after the delay. Or if you insert a mono effect such as Guitar Rig into a stereo track, its output is mono and the track data will be treated as mono after going through Guitar Rig.
The first step is to confirm whether the recorded audio is mono or stereo (regardless of the track interleave setting), which is easy to determine by looking at the waveform. If you have accidentally recorded a mono source (e.g. a microphone) to a stereo track, select all the clips in that track, right-click and choose "convert to mono". SONAR should automatically set the track interleave to mono.
Most of the time, you'll want the track interleave to match the track data: mono for mono, stereo for stereo. The exception is when you're inserting a stereo effect into a mono track, in which case you may need to change the interleave to stereo in order for the effect to work correctly.
So the second step is to look at each effect in the FX bin and ask yourself if the output is likely to be stereo. Some delays are always stereo out, choruses are stereo out, most reverbs are stereo out, many phasers and flangers are stereo. Amp sims are usually mono out.
Many plugins come in both mono and stereo versions, so you can use them in any situation. But which one you use may depend on what effect precedes it. Some plugins, such as PerfectSpace, have a switch to toggle between mono and stereo on the input side.
Yeh, this can get complicated. If you took a screenshot of the offending tracks we might be able to offer more specific advice.