The most common and most likely answer to this crossword clue is the 9 letter word ROOKERIES
I've seen this crossword clue in The Daily Telegraph
R
O
O
K
E
R
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S
More clues leading to the result ROOKERIES
Buddy explains!
The straight part
We know that "where birds nest" is the straight/definition part of the clue. The straight part is often a synonym or definition, in this case where birds nest = rookeries.The cryptic/wordplay part
In cryptic crossword there's often an wordplay/cryptic part as well.This part involves a more complex hint, such as an anagram, homophone, hidden word, etc.
Sadly, We don't have an explanation for this specific crossword clue yet.
What does ROOKERIES mean?
ROOKERIES noun- A colony of breeding birds or other animals.
- A crowded tenement.
- A place where criminals congregate, often an area of a town or city.