fix(security): improve atomic file write and handle encryption key placement

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- Throw `RandomException` for better error reporting in `atomicWriteFile`.
- Simplify Windows-specific `rename()` fallback logic.
- Fix `encryption.key` assignment order to ensure consistency in `.env` updates.

Signed-off-by: objecttothis <17935339+objecttothis@users.noreply.github.com>

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