I am upgrading the Prosper 202 1.8.4 from 1.8.3 though ultimately I want to use STM tracker v4 (I want to focus on Mobile as my traffic).
The Prosper202 1.8.4 upgrade calls for a clean slate (http://prosper.tracking202.com/apps/docs/upgrading/), what folders will I need to keep from the original STM tracker package in order to make it work? I did purchase the Geo from Maxmind. Thank you in advance.
If you have 1.8.3 click the upgrade button in the software. It will automatically upgrade you just like wordpress does.

Got it thanks!
I am not sure if the STM tracker mods will work with the new update.
I would try it first on an install you don't really care.