Just tried rendering regions with that setting unchecked, no difference. Oh well, back to CDWave most likely.
Did you try the ALT+Z zero crossing split?
I didn't. I'm not sure of the workflow with splits. I ended up using the markers-to-regions/auto-render method because everything else seemed to involve tricky selecting or something.
I do this all the time. It's what I have to do because for my recordings I want a fade in / out at the start / end of each track, and fades can only be placed on the boundaries of an item (therefore needing the split).
1. Make sure snapping is enabled, but grid is disabled.
2. Create splits at the start and end of each track. Adjust fades if necessary. For tracks with fades, I use S for a normal split. For continuous / gapless, this is where I'd suggest using the ALT+Z "nearest zero crossing" split.
3. Create markers at split points to mark track in / out. If you used ALT+Z, zoom in close to make sure that your markers are exactly aligned to your zero-crossing split (snapping helps).
Then you can use SWS to create Regions from your markers, and then Extensions > Autorender > Batch render regions.