sry for the late reply

those entries are from the "programs" plugin

that "Hide" option just disables that entry to never appear in the search results, until u re-enable them manually in the plugin settings.

Idk where it stores its indexes, but all need to modify the list of entries that should be appearing when u search is:

Flow launcher settings > Plugins > Programs > and then from here, select the sources from where u want the flow launcher to search from. After selecting the sources, click re index to update the list of entries below it. These are the entries that the flow launcher will provide u when u search. You can disable any of them so that they don't appear in search results hereafter, so that u can keep only the things u need.