I don't know the Intune product to be able to do a direct comparison, but anecdotally I've heard that it won't gather software or usage details for the purposes of managing software licenses to the same level of fidelity as what you can get from the FlexNet inventory agent (or many other inventory tools).
The following post may provide helpful input when comparing the FlexNet inventory agent against other options: The big choice for gathering inventory: the FlexNet inventory agent or tool "XYZ"?
(Did my reply solve the question? Click "ACCEPT AS SOLUTION" to help others find answers faster. Liked something? Click "KUDO". Anything expressed here is my own view and not necessarily that of my employer, Flexera.)
