For managing ST projects, I use the excellent https://github.com/randy3k/ProjectManager/ package.
This adds a bunch of commands to my cmd palette, all starting with the Project Manager: prefix. Now I would like to prevent the default Project: commands to show up (these are Default/ commands present in the default ST installation). Is there an easy way to do that?
The only way to hide ST core commands would be to completely override Packages/Default/Default.sublime-commands and remove them.
This will cause you to miss all commands added by ST updates in future though.
Better leave it as is.
As long as you’re willing to understand the paradigm, then OverrideAudit will tell you if/when you need to resolve future updates to that file so it’s not that dangerous to override it