I'm finding that I have to run the coalase database script anytime I do a lot of editing on my desktop OmniFocus. I've been tracking the size of the folder on the server, along with the types of files in it. Yesterday I was catching up on my weekly review (3 weeks behind. bleah.) and my file exploded up to 3 megabytes. No amount of syncing could it it to come down very much. This made my iPhone sync times a copule minutes, or more.
These are the graphs I have from my monitoring system.
I think the solution is to sync less often. Very rarely is the every minute sync going to be useful in my use cases. I still have to be sure to sync before I close my laptop, or lock my iPhone. All every minute does is create a crazy number of transactions to catch up on... you can see from the graphs that I got up to 600 transaction files.