From what you described you're editing the file in DW and then manually uploading it via FlashFXP?
There is no reason for the active edits window to appear in this scenario, it should only activate if you're using the remote edit feature in FlashFXP.
I tested this on Windows XP SP3 and I was unable to reproduce the behavior.
How are you switching between FlashFXP and the other apps, is it alt-tab, the taskbar, etc?
What if you try a different method of switching between apps does this still occur?
Do you have any non-standard task switching apps on your computer?
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