Adds tests and fixes issues by verifying incremental project updates are handling language service ref counting correctly

[sheetalkamat]

• e228e1b Whenever LS updates the program, we are ensuring the expected ref counting based on source files in all projects matches with what's currently in the document registry. While looking into Handle already released source files that dont match scriptKind #54401 I realized that there are more scenarios where language ref counting is not correct and identified more as well when creating this test framework.
• 533145d This fixes issue where documents were not released from cache whenever clearing semantic cache, which meant we held onto documents even though we don't need them
• ff40714 implied node format change was causing to increase the language service ref count to increment incorrectly and incorrect module resolution reuse.
• baf872c ensures that project always correctly represents the program state same as that of LS so that its reflected correctly for all purposes.