Cryptic crossword clue
Part of stream from main server is initially lost 9

The most common and most likely answer to this crossword clue is the 9 letter word HEADWATER

I've seen this crossword clue in Independent
H
E
A
D
W
A
T
E
R

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The straight part
We know that "Part of stream" is the straight/definition part of the clue. The straight part is often a synonym or definition, in this case part of stream = headwater.
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 HEADWATER mean?

HEADWATER noun
  1. (chiefly in the plural) The source (and the initial part) of a stream

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