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Please do not split topics across several threads. This makes following the conversation in the threads view very hard as the context of the other messages is missing. If you have additional information either edit the original message or post to its thread. Regarding the problem, please provide an MCVE. What you provided works perfectly fine here:

dep: DefaultExternalModuleDependency{group='org.openjfx', name='javafx-base', version='11.0.2', configuration='default'}
dep: DefaultExternalModuleDependency{group='com.github.ben-manes', name='gradle-versions-plugin', version='0.11.1', configuration='default'}

Apologies, I was attempting to create a more readable case but ended up removing the issue entirely. I have now solved my issue, some info for the interested: It seems the actual issue I was encountering was unrelated to dependencies, but instead with a change to the order in which gradle calls methods on extensions This shouldn't make any difference generally, but in this case (likely due to poor implementation) it does. See this comment on github https://github.com/openjfx/javafx-gradle-plugin/issues/140#issuecomment-1494730885