I think this is really an Eclipse limitation and not specific to MCUX, but I'm going to mention it here on the off chance that something can be done about it, because it annoys me to an unaccountable degree.
If you open the project properties or window preferences, the window always starts in the same place and with the same size. It's sized to just barely fit everything in the current view (usually), and will resize automatically when looking at different items. It does the resizing in place, which means that in the default starting position the window usually expands out across to my second monitor or off the bottom of the screen.
Basically every time I launch one of these windows I have to spend a few seconds positioning and resizing it and widening the left pane to make it easier to read everything. If it could always come back up in the same place and with the same layout, that would be great.