I updated GIMP from MacUpdates since then I got two Gimp icons in Launchpad. I also deleted the Gimp.app from finder but now i get this question mark on the gimp icon in Launchpad. How to completely remove both of these icons?
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In my occasion all the shortcuts had the question marks on it, so I didn't have a use of CTRL+Click (and it didn't work). However as @user310633 mentioned, the Kill command as below worked.
defaults write com.apple.dock ResetLaunchPad -bool true && killall Dock
PS: Sorry I had too create a new comment to add my experience as my reputation score on this forum doesn't let me answer on previous comments.
Worked exactly as indicated above. Hold control and click the offending icon and it will appear with a ? over it, drag it to the trash bin and it's gone. Works Even with problem icons that do not show up in finder, had ostensibly been deleted by appcleaner and did not show an X when jiggling mode entered.