Update changelog

Author: benjeffery

python/CHANGELOG.rst

@@ -23,8 +23,10 @@
 
 **Changes** 
 
-- ``TreeSequence.write_vcf`` now warns instead of errors if an individual has a mix
-  of sample and non-sample nodes when no specific individuals are provided.
+- ``TreeSequence.write_vcf`` now filters non-sample nodes from individuals
+  by default, instead of raising an error. These nodes can be included using the
+  new ``include_non_sample_nodes`` argument.
+  (:user:`benjeffery`, :pr:`3163`)
 
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 [0.6.3] - 2025-04-28