My guess would be that you have a plug-in on the SD track that uses an extra buffer of its own for processing, and requires Plug-in Delay Compensation. SONAR applies PDC automatically, delaying all other tracks including synths and live, input-echoed audio) to maintain sync. On a drum track, Transient Shaper would be a likely offender.
If that's the case, and you don't want to leave SD frozen, you will need to remove the offending plug-in from the track, possibly substituting something else that doesn't need PDC. In general plug-ins that do need PDC are intended for the Mixing/Mastering phase of a project and shouldn't be used while still tracking.
There's also a PDC Bypass button (default hotkey "D" IIRC) in the Control Bar for temporarily disabling PDC on input-monitored audio tracks, but I don't recall if it works for soft synths.