Quite a bit of the underlying code for 3089 has been updated. Many engine changes were made for 5089, and now a chunk of those are integrated into 3089. This should make 3089 overall more stable & run better -- let me know if you notice something broken!
I also added a reference on the configuration screen to the upcoming 5089 successor, ROMBIE!
http://store.steampowered.com/app/745090/ROMBIE/