Hi Midimannz -
I'm probably not following exactly what you're doing, but "Sync by Audio" is designed to align clips from a multi-cam shoot. i.e. the core of the audio content is the same.
When multiple clips are selected & you click "Sync by Audio" the clips are naturally inserted in different track so the audio can be aligned.
It sounds like you're syncing by audio
after you've done a fair bit of editing.
Some timeline screenshots and a bit more detail would help.
Cheers - Tony
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