Query Unit Tests - CodeQL Development MCP Server

[UPDATE PRIMITIVE] Fix bugs 1–5 and implement design improvements 1–3, 5 from v2.25.1-next.2 evaluation #116

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Run time

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Job	Run time
Query Unit Tests - actions	2m 5s
Query Unit Tests - go	2m 4s
Query Unit Tests - java	3m 39s
Query Unit Tests - cpp	2m 31s
Query Unit Tests - csharp	3m 4s
Query Unit Tests - javascript	3m 38s
Query Unit Tests - rust	8m 12s
Query Unit Tests - python	3m 16s
Query Unit Tests - ruby	5m 11s
	33m 40s