I am working on a Laravel project, but when I try to use the "project search" or "fuzzy open" features, none of the files in the vendor/ directory are being found.
I tried changing the list of 'Ignored Files' to just .git, didn't work.
There is an Atom package named incremental search that you can use to search thru open files. After installing incremental-search you can type command-i and this opens a text box near bottom of screen where you can input your search string.
You can select several occurrences of the same word using ctrl + d repeatedly, or select all the occurrences by typing alt + F3 .
Have you tried changing the setting for Settings > Core Settings > Exclude VCS Ignored Paths? This is checked by default, and the fuzzy finder will not show files that are ignored.
More info here: https://discuss.atom.io/t/project-search-does-not-index-files-in-gitignore/2804
Here's a screenshot showing the box to uncheck:

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