[Lizard]

1.0.3 has already been sent to Apple.

Syncing will get gradually slower if you have a machine that isn't synced regularly. For example, my syncs get slower by Sunday night when my work computer hasn't synced since Friday afternoon. Syncing at work Monday morning brings it back up to speed.

There are only two situations where you should need to run the script again:
1) You change the sync settings on your iPhone and change them back again.
2) You stop using OmniFocus on one of your machines. (eg: upgrading your iPhone)