[degenerate]

When a user search includes a non-indexed repository, GitHub needs to include a warning message along with the search results, something similar to what you just mentioned:

"One or more repositories of this search is not yet indexed, please try your search later for accurate results."

Likewise for the 2nd case.

[100k]

For the repositories not in the index, we do show a message to try again later. For documents that have been excluded, we agree we need better visibility.

[prepend]

Do you list the repos not in the index?