Not all open apps in dock show as active

Using 10.5.4... and I think this problem dates from the update.
I have a bunch of apps icons permanently in the Dock, but not all open apps show with the 'open' indicator below.
And some programs open, and do not appear in the Dock at all.
What can this be?

Hi.
Have you tried trashing the Dock's preference file? Username > Library > Preferences > com.apple.dock.plist?
If you do, you need to restart your computer afterwards.
Vic

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