Only one license for Melodyne is issued with SONAR. You received yours with X3. Melodyne will show as part of Platinum but it is the same license. Do not bother with installing Melodyne again. Platinum will pick up the previous install although it will show as not installed in the Command Center.
You can also skip Rapture and Dpro.
If you want to delete old versions of SONAR do it before installing Platinum but if you have the space, it is best to leave them installed. If you manually delete the tutorials in "Cakewalk Content" for each version, SONAR uses about 200MB of disk space per version. The rest is shared between all the versions installed. Leaving the tutorials on the disk will consume a couple of GB more. Also each version from 8.5 through X3 contain plug-ins not included in newer versions.