Often, I have a big folder like Lectures/ which may have sub-folders based on topics, and each topic might have additional folders. To clean auxillary LaTeX files in one fell swoop use,
find ./ \( -iname "*.bbl" -o -iname "*.aux" -o -iname "*.log" -o -iname "*.blg" -o -iname "*.nav" -o -iname "*.snm" -o -iname "*.toc" -o -iname "*.vrb" -o -iname "*.out" -o -iname "*.synctex.gz" -o -iname _minted*" \) -delete
