@arozanski_1087 thanks for clarifying...
This will be a bit tricky to debug; there are some supported scenarios for the quirky version in the UI, but most many over the API don't work (because API requires semver).
There could be other factors at play like connectors or caching, or who knows... so could you set up a basic reproduction case, that you could share/ send to us?
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create two basic packages (no contents just the nuspec file is ok) for 1.0 and 1.0.0, basically that mimic your real packages; your real packages are okay too, but in case you can't share for propietary reason
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create a new NuGet feed
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try to repdouce on the new NuGet feed
We've tried the above test, but don't experience the problem you describe... the packages can be deleted.