refactor(npm): remove use of pnpm <v9 id field

[jbedard]

Our only use of this is when handling file: versions and I can not find any instances where a file contains an id.

This field is also removed in pnpm v9+ so we should move away from any dependency on it.

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Changes are visible to end-users: no

Test plan

• Covered by existing test cases

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⚠️ Buildkite build #6984 failed.

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