Herring Alert
What's going on is that DH-485 protocol and DF1 Half-Duplex Slave protocol were added to the MicroLogix 1000 controllers a couple years after they came out; prior to that all they had was DF1 Full Duplex protocol, which is still the default.
When you download to any A-B processor, RSLogix checks the processor Series and firmware revision to be sure that you're loading a program that is compatible with that firmware; you couldn't load a program configured for DH-485 protocol, for example, into a 1996-vintage MicroLogix 1000 Series A controller.
If you have a newer (or larger) controller than your program indicates, RSLogix will ask if you want to change the controller type and go ahead and download, which you evidently did.
Your PanelMate comms are probably unrelated to the change in Series designation (which I think should have Series letters, not the feature set!).
What protocol is the PanelMate expecting to use ?