Synching bookmarks with iPhone

When I synched my iPhone for the second time, I ended up with double bookmarks on both the iPhone and Safari. I clearly don't want this. So I deleted the doubles, and unchecked the synch bookmarks.
At the Apple store they had no idea why this happened. So I tried to synch again this time with the synch bookmarks checked. Now it says it will delete 55 items from bookmarks on my computer. I don't want it to do this either since now the bookmarks on my iPhone match my computer. So I don't know why it is going to delete the bookmarks on my computer.
While this is not a huge problem, I would like to be able to keep the iPhone up to date with my bookmarks as I add them to my computer.
Anyone else having problems with synching and bookmarks.
Thanks in advance.
Russell

I just started having this happen this morning. On the Mac I had "Bookmarks Bar" and "Bookmarks Menu" with spaces between the words. These had my functioning URLs. There were also "BookmarksBar" and "BookmarksMenu" with no spaces. These were empty.
On the iPhone side, it was the opposite. "BookmarksBar" and "BookmarksMenu" had the URLs in them while "Bookmarks Bar" and "Bookmarks Menu" did not.
So, I re-synced, then deleted the non-space on both Mac & iPhone, and then synced again, but under Advanced, I checked "Bookmarks" to replace the bookmarks on the phone with the bookmarks from the computer.
All looks well at the moment.

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