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Not sure where that went wrong, this one runs
find . -maxdepth 1 -type f -iname '*.txt' -o -iname '*.pdf' |
awk -v FS="." '{ print $2 }' | sort -u |
while read BASE
do
( echo...

@ Dahu: your solution is incorrect:

ls Folder2/$file Folder3/$file*will return non-zero even if $file exists in one of the dirs (but doesn't in the other). You are also missing keyword 'in' in the...