It's fairly easy once you get the hang of it.
If I plan on re-rendering the video track, I do everything with Vegas Pro. If I only need to trim the recording & not touch the video track, I use a few different apps.
1) I trim the recording with Avidemux & save.
2) Import the file from Avidemux to Vegas, sync the new audio track & render just the new audio.
3) Import the file from Avidemux along with the new audio track from Vegas to mkvmerge for final assembly.