I was hoping there was a way to not just make it inactive, but to remove it completely so that it doesn't show up inactive as well.
The reason I ask this is because if you wish to update manually by clicking the update button in Software update, you get a dialog box telling you that you have x number of inactive updates.
I may have a fix for my own problem, but wanted to know from others if they have tried this or if there are other options.
My fix for this would be to right down the updates in question and place empty files with these names in the /library/receipts/ folder.