Problem #1 Some of icons in my RW Library are not showing up
I think Adam effectively clarified that. I’ll only add that the “Show Hidden” menu item will move to the Developer preferences in a future version of Stacks. It’s not really a feature that users should ever use. It only confuses folks (but it is necessary for developers) – so we’ll adjust the UI a bit there. I’d recommend just switching that off. 
Problem #2 Some of Stacks I have installed are not appearing in RW Library.
This is a symptom with many possible causes. Let’s just list off a few of the top ones and then delve a bit deeper into one of them.
- There are several RW addons folders – the one you’re looking at is not the one being used
- The addons folder has a custom location, but it’s set to the wrong place
- The addons folder had a custom location, but has become reset
- The addons folder has a custom location, but the location was moved, confusing RW.
- Some of your stacks have become corrupted/mangled by Dropbox/Cleaner-Utilities/Backups/Updates
- Some of your stacks were installed incorrectly
- You updated things and the updates were significant enough that Stacks could not “live-update” the changes (you need to restart RW).
I started typing here to answer all of these but when I hit about 3 pages – I decided I should probably put these somewhere I can find them again – because I bet more people would like to see them. So I put them in our Q&A site…
All of these problems fall into a few major groups:
- Question: Some Stacks just aren’t appearing and the seem installed, why?: Answer
- Question: Something got corrupted, help!: Answer
- Question: Why do things look strange after an update: Answer
I think there are even more potential causes – but they get a bit esoteric after these major three categories. If you try all of this and stuff still seems wrong – then it’s probably best to contact our support folks: http://yourhead.com/support
Isaiah