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This appears to be a v3.2.1 JAR packaging defect rather than a missing conversion program or a problem with both PDFs.

The exact Stirling-PDF-with-login.jar asset from v3.2.1 contains:

BOOT-INF/lib/jpdfium-natives-linux-x64-1.1.6.jar

but not jpdfium-natives-windows-x64-1.1.6.jar. Merge always uses JPDFium, and normal split operations use it too: merge implementation, split implementation.

The release workflow builds the downloadable JARs on Ubuntu without setting jpdfiumPlatforms; auto therefore selects the Linux native package. This matches open issue #8321, which reports NativeNotFoundException: No native binary for platform: windows-x64.

You can confirm the JAR and exception with:

java -

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